Starting /dee2/code/volunteer_pipeline.sh SRR13165369 current disk space = 1541945274368 free memory = 1602330744 SRR13165369 SRAfilesize 583fcc67ed1d53af4d49feb9ca506ba8 SRR13165369.sra SRR13165369.sra file validated SRR13165369 is paired end SRR13165369 is conventional basespace SRR13165369 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR13165369_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 54 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.564 37.0 37.0 37.0 37.0 37.0 2 36.23425 37.0 37.0 37.0 37.0 37.0 3 36.4715 37.0 37.0 37.0 37.0 37.0 4 36.5885 37.0 37.0 37.0 37.0 37.0 5 36.5795 37.0 37.0 37.0 37.0 37.0 6 36.6015 37.0 37.0 37.0 37.0 37.0 7 36.491 37.0 37.0 37.0 37.0 37.0 8 36.609 37.0 37.0 37.0 37.0 37.0 9 36.501 37.0 37.0 37.0 37.0 37.0 10-14 36.5178 37.0 37.0 37.0 37.0 37.0 15-19 36.5173 37.0 37.0 37.0 37.0 37.0 20-24 36.4971 37.0 37.0 37.0 37.0 37.0 25-29 36.475 37.0 37.0 37.0 37.0 37.0 30-34 36.42 37.0 37.0 37.0 37.0 37.0 35-39 36.419200000000004 37.0 37.0 37.0 37.0 37.0 40-44 36.3358 37.0 37.0 37.0 37.0 37.0 45-49 36.082 37.0 37.0 37.0 37.0 37.0 50-54 35.8272 37.0 37.0 37.0 37.0 37.0 55-59 35.7262 37.0 37.0 37.0 37.0 37.0 60-64 35.732299999999995 37.0 37.0 37.0 37.0 37.0 65-69 35.6613 37.0 37.0 37.0 37.0 37.0 70-74 35.74249999999999 37.0 37.0 37.0 37.0 37.0 75-79 36.1791 37.0 37.0 37.0 37.0 37.0 80-84 36.150999999999996 37.0 37.0 37.0 37.0 37.0 85-89 36.1803 37.0 37.0 37.0 37.0 37.0 90-94 36.15319999999999 37.0 37.0 37.0 37.0 37.0 95-99 36.11559999999999 37.0 37.0 37.0 37.0 37.0 100-104 36.119 37.0 37.0 37.0 37.0 37.0 105-109 36.059099999999994 37.0 37.0 37.0 37.0 37.0 110-114 35.9971 37.0 37.0 37.0 37.0 37.0 115-119 35.956199999999995 37.0 37.0 37.0 37.0 37.0 120-124 35.859 37.0 37.0 37.0 37.0 37.0 125-129 35.6823 37.0 37.0 37.0 37.0 37.0 130-134 35.653999999999996 37.0 37.0 37.0 37.0 37.0 135-139 35.4127 37.0 37.0 37.0 37.0 37.0 140-144 34.9123 37.0 37.0 37.0 29.8 37.0 145-149 34.4983 37.0 37.0 37.0 25.0 37.0 150-151 34.081 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 2.0 21 0.0 22 0.0 23 4.0 24 6.0 25 8.0 26 4.0 27 6.0 28 15.0 29 23.0 30 32.0 31 62.0 32 171.0 33 101.0 34 193.0 35 343.0 36 2573.0 37 457.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 57.275 9.775 3.125 29.825000000000003 2 21.49861704802615 10.384712094543627 28.94141312547146 39.175257731958766 3 18.925 10.75 28.475 41.85 4 24.05 17.175 21.3 37.475 5 29.225 21.2 21.725 27.85 6 27.400000000000002 24.0 22.650000000000002 25.95 7 21.125 23.599999999999998 35.25 20.025000000000002 8 18.3 22.575 30.95 28.175 9 23.175 19.325 30.975 26.525 10-14 23.995 24.285 24.005000000000003 27.715 15-19 24.709999999999997 21.325 25.61 28.355000000000004 20-24 24.45 22.95 25.124999999999996 27.474999999999998 25-29 24.445 22.505 24.95 28.1 30-34 23.62 21.525 25.235000000000003 29.62 35-39 23.315 22.66 24.15 29.875 40-44 23.86 22.085 25.195 28.860000000000003 45-49 24.335 20.3 25.41 29.955 50-54 24.104999999999997 20.200000000000003 26.424999999999997 29.270000000000003 55-59 24.645 21.105 25.430000000000003 28.82 60-64 25.009999999999998 20.165 26.21 28.615000000000002 65-69 25.014999999999997 22.065 24.465 28.455000000000002 70-74 26.55 21.7 23.525 28.225 75-79 26.345000000000002 23.32 22.675 27.66 80-84 25.679999999999996 22.79 23.775 27.755000000000003 85-89 26.39 21.58 22.865 29.165000000000003 90-94 26.640000000000004 22.55 23.119999999999997 27.689999999999998 95-99 25.919999999999998 21.38 23.974999999999998 28.725 100-104 26.314999999999998 22.73 23.48 27.474999999999998 105-109 26.795 23.02 22.735 27.450000000000003 110-114 26.985 22.695 23.26 27.060000000000002 115-119 27.215 21.455 23.244999999999997 28.084999999999997 120-124 27.384999999999998 23.395 21.81 27.41 125-129 26.905 23.06 21.44 28.595 130-134 27.725 22.29 22.075 27.91 135-139 27.445000000000004 24.125 21.065 27.365000000000002 140-144 28.955 22.975 20.41 27.66 145-149 29.845 22.275 21.22 26.66 150-151 29.799999999999997 22.5 19.8125 27.8875 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 1.0 1 1.0 2 1.0 3 1.5 4 1.0 5 0.5 6 0.5 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.0 24 0.0 25 0.5 26 0.5 27 0.0 28 0.0 29 0.5 30 1.0 31 3.0 32 4.5 33 3.0 34 3.0 35 6.0 36 7.5 37 13.0 38 22.0 39 24.0 40 34.0 41 41.5 42 40.0 43 54.0 44 67.5 45 84.0 46 103.5 47 125.0 48 151.0 49 171.5 50 203.0 51 216.0 52 211.5 53 208.5 54 225.0 55 291.5 56 323.0 57 264.5 58 193.5 59 162.5 60 116.0 61 80.5 62 67.5 63 54.5 64 50.5 65 40.0 66 25.5 67 16.0 68 22.0 69 24.5 70 30.5 71 33.0 72 27.0 73 27.5 74 30.0 75 26.0 76 24.5 77 21.0 78 12.5 79 4.5 80 0.0 81 0.5 82 0.5 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.575 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.0 35-39 0.0 40-44 0.0 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.0 125-129 0.0 130-134 0.0 135-139 0.0 140-144 0.0 145-149 0.0 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 50.64999999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 59.081934846989135 29.925 2 20.63178677196446 20.9 3 9.131293188548865 13.875000000000002 4 3.751233958538993 7.6 5 2.7640671273445214 7.000000000000001 6 1.6288252714708784 4.95 7 0.7897334649555774 2.8000000000000003 8 0.3948667324777887 1.6 9 0.4442250740375123 2.025 >10 1.3820335636722607 9.325 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences warn #Sequence Count Percentage Possible Source GATCGGAAGAGCACACGTCTGAACTCCAGTCACACGACAGAATCTCGGGT 34 0.8500000000000001 TruSeq Adapter, Index 15 (97% over 36bp) GATCGGAAGAGCACACGTCTGAACTCCAGTCACACGACAGAATCGCGGGT 18 0.44999999999999996 TruSeq Adapter, Index 15 (97% over 36bp) GGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGC 16 0.4 No Hit GTCCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGA 16 0.4 No Hit GGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCCC 16 0.4 No Hit GCTCCACCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTCATTCTTG 15 0.375 No Hit GCTTTCTTTTCCTCTGGCTACTAAGATGTTTCAGTTCGCCAGGTTGTCTC 15 0.375 No Hit GCCACCTACAGACGCTTTACGCCCAATCATTCCGGATAACGCTTGCATCC 14 0.35000000000000003 No Hit GGGCTTACTACTTATATGCTTTCAGCAGTTATCCTCTCCGCACTTGGCTA 14 0.35000000000000003 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACACGACAGAATCTCGGTT 14 0.35000000000000003 TruSeq Adapter, Index 15 (97% over 36bp) GGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCG 13 0.325 No Hit GGCAGAAATTTGAATGATGCGTCGCCGGCACGAGGGCCGTGCGATCCGTC 13 0.325 No Hit GTCGCTATGAACGCTTGGCTGCCACAAGCCAGTTATCCCTGTGGTAACTT 13 0.325 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACACGACAGAATCTCGGGG 13 0.325 TruSeq Adapter, Index 15 (97% over 36bp) GTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGC 12 0.3 No Hit GGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATT 12 0.3 No Hit CCTCACGGTACTACTTCGCTATCGGTCACCCAGGAGTATTTAGCCTTGCA 11 0.27499999999999997 No Hit GCGCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTC 11 0.27499999999999997 No Hit GCTTGTATTGCTCTCCCACAACCCCGTTTTCACGGTTTAGGCTGCTCCCA 11 0.27499999999999997 No Hit GCTCCCCTAGCTTTCGTCTCTCAGTGTCAGTGTCGGCCCAGCAGAGTGCT 11 0.27499999999999997 No Hit GTTCAGTCATAATCCGGCACACGGTAGCTTCGCGCCACTGGCTTTTCAAC 11 0.27499999999999997 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 10 0.25 No Hit GGGGTGGGCTTACTACTTATATGCTTTCAGCAGTTATCCTCTCCGCACTT 10 0.25 No Hit GCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCG 10 0.25 No Hit CATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCTTTTATCTAAT 10 0.25 No Hit GTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCT 10 0.25 No Hit GTCCAGTCAACTGCTGCGCCTCAACGCATTTCGGGGAGAACCAGCTAGCT 10 0.25 No Hit GTGGGCTTACTACTTATATGCTTTCAGCAGTTATCCTCTCCGCACTTGGC 10 0.25 No Hit CTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCAAAGACTTT 9 0.22499999999999998 No Hit GTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCT 9 0.22499999999999998 No Hit GTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCC 9 0.22499999999999998 No Hit CCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCT 9 0.22499999999999998 No Hit GTGTGTACAAGGCCCGGGAACGGATTCACCGCCGTATGGCTGACCGGCGA 9 0.22499999999999998 No Hit GTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGACGGAGTCTACCGC 9 0.22499999999999998 No Hit GTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTA 9 0.22499999999999998 No Hit GGTGTGTACAAGGCCCGGGAACGGATTCACCGCCGTATGGCTGACCGGCG 9 0.22499999999999998 No Hit GCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGC 9 0.22499999999999998 No Hit CCCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCA 8 0.2 No Hit GTCCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAG 8 0.2 No Hit GCCAGCTCCTATAGTGTGACGGGCGGTGTGTACAAGGCCCGGGAACGGAT 8 0.2 No Hit GCACTCTTTAAAGGGTGGCTGCTTCTAGGCAAACCTCCTGGCTGTCTTTG 8 0.2 No Hit CCCGACTCGTTGACGGCGCCTCGTGGGGCGACAGGGTCCGGGCCGGACGG 8 0.2 No Hit GTCCCAGTGTGGCTGATCATCCTCTCGGACCAGCTACTGATCATCGCCTT 8 0.2 No Hit GGGGCCTTAGCTGGTGATCCGGGCTGTTTCCCTCTCGACGATGAAGCTTA 8 0.2 No Hit CCCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAGTGT 8 0.2 No Hit CCTAGATGTCCAGTCAACTGCTGCGCCTCAACGCATTTCGGGGAGAACCA 7 0.17500000000000002 No Hit GTCTTTCGCCCCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATC 7 0.17500000000000002 No Hit GTCGGATGGGGAGCCCGCAGGCCGTTGCAGCGCAGTGCCCCGAGGGACAC 7 0.17500000000000002 No Hit GTGTACAAGGCCCGGGAACGGATTCACCGCCGTATGGCTGACCGGCGATT 7 0.17500000000000002 No Hit CTCATCTTGGGGTGGGCTTACTACTTATATGCTTTCAGCAGTTATCCTCT 7 0.17500000000000002 No Hit GCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGC 7 0.17500000000000002 No Hit CATCAGTAGGGTAAAACTAACCTGTCTCACGACGGTCTAACCCCAGCTCA 7 0.17500000000000002 No Hit CCATCGTTTACGGCTAGGACTACTGGGGTCTCTAATCCCATTTGCTCCCC 7 0.17500000000000002 No Hit CTATCGGTCTCTCGCCTGTATTTAGCCTTGGACGGGGTCTACCGCCCGAT 7 0.17500000000000002 No Hit GTTCGAGCTTTTCCTGGGAGTATGGCATCGGTTACATACTTCAGTGCCGT 7 0.17500000000000002 No Hit GTTCCTTAGAGAGAGTTGTCTCGCGCCCCTAGGTATTCTCTACCTACCCA 7 0.17500000000000002 No Hit GCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCC 7 0.17500000000000002 No Hit CCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCT 7 0.17500000000000002 No Hit GCTACTACCACCAAGATCTGCACCGACGGCCGCTCCGCCCGGGCTCGCGC 7 0.17500000000000002 No Hit ACCTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTA 7 0.17500000000000002 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 7 0.17500000000000002 No Hit GGCTGCTGGCACAGAGTTAGCCGATGCTTATTCCTCAGATACCGTCATTG 6 0.15 No Hit GCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCA 6 0.15 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACACGACAGAATCGCGGGG 6 0.15 TruSeq Adapter, Index 15 (97% over 36bp) GCCCCGTTCATCTTCAGCGCAAGGGCGCTCGATCAGTGAGCTATTACGCA 6 0.15 No Hit GTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACACCTGCG 6 0.15 No Hit GTCATTGTTTCTTCTCCGAGAAAAGAAGTTGACGACCCGTAGGCCTTCCA 6 0.15 No Hit CCCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCG 6 0.15 No Hit GCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGC 6 0.15 No Hit CATGGATAGATCACCCAGGTTCGGGTCCATAAGCAGTGACAATCGCCCTA 6 0.15 No Hit GTCATCAGTAGGGTAAAACTAACCTGTCTCACGACGGTCTAATCCCAGCT 6 0.15 No Hit ACATGCTCCACCGCTTGTGCGGGCCCCCGTCAATTCCTTTGAGTTTCATT 6 0.15 No Hit GGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTC 6 0.15 No Hit GTCACAATAGTCTGCTGAGGGACTTTATCAGCAGTTTGATGTTCTGCCGC 6 0.15 No Hit AGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCAT 6 0.15 No Hit GGCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCCAATGGATCC 6 0.15 No Hit GCCGCCGTTCACCGGGGCTTCGGTCGCCGGCTTCCCTGTCATCAGTTCAC 6 0.15 No Hit CTTGGGGTGGGCTTACTACTTATATGCTTTCAGCAGTTATCCTCTCCGCA 6 0.15 No Hit GGCCTTTCGGCCTGATCTTAGGCCCTGACTCACCCTCCGTGGACGAACCT 6 0.15 No Hit GCCCCATGCTACTCGGGTCAGAGCGTAAGCTAGTGATGCTTTCGGCTACT 6 0.15 No Hit CTGCAAAGGATTCAGCCCGCCGCCCGTGGGGAAGGGAGCTTCGAGGCGGC 6 0.15 No Hit GTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATT 6 0.15 No Hit GCACCTACAGACGCTTTACGCCCAATCATTCCGGATAACGCTTGCATCCT 6 0.15 No Hit CCTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTAC 6 0.15 No Hit TGATAGAACTCGTAATGGGCTCCAGCTATCCTGAGGGAAACTTCGGAGGG 6 0.15 No Hit GTCGGTTCGGACCTCTGCTTAGTTTCATCCAAGCTTCATCCTGGTCATGG 6 0.15 No Hit CCCGTGTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTG 6 0.15 No Hit GTTCCGTCATAATCCGGCACACGGTAGCTTCGCGCCACTGGCTTTTCAAC 6 0.15 No Hit GCTCAGCACGGTTTCACGTTCTATTTCACTACCCACTGGGGGTTCTTTTC 6 0.15 No Hit GTCGTCTGCAAAGGATTCAGCCCGCCGCCCGTGGGGAAGGGAGCTTCGAG 6 0.15 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 6 0.15 No Hit GCTCCGGTGGGTTCCGTTCCCTTAACCAAGCCACTGCCTATGAGTCGCCG 6 0.15 No Hit GCTCCAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCTACTAGATGGT 6 0.15 No Hit GTCTCTCGCCTGTATTTAGCCTTGGACGGAGTCTACCGCCCGATTTGGGC 6 0.15 No Hit GTCCAGGTGCAGGTAGTCCGCATCTTCACAGACATGTCTATTTCACCGAG 5 0.125 No Hit GGCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAG 5 0.125 No Hit GTGTCGCCCAGGGCATAAGGGGCATGATGACTTGGCCTCATCCTCTCCTT 5 0.125 No Hit GCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTTTCCCTCGCGGTA 5 0.125 No Hit GACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGCATTCCTCGTT 5 0.125 No Hit GCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCCCC 5 0.125 No Hit GTCAGACTCCTTGGTCCGTGTTTCAAGACGGGTCGGATGGGGAGCCCGCA 5 0.125 No Hit GGCTACCTTAAGAGAGTCATAGTTACTCCCGCCGTTTACCCGCGCTTGGT 5 0.125 No Hit GCCAGAGGCTGTTCACCTTGGAGACCTGATGCGGTTATGAGTACGACCGG 5 0.125 No Hit CCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACA 5 0.125 No Hit CCATCATATACGATTGTACGTGACATCGTTTCCCCCGGATGCAATTGAGC 5 0.125 No Hit GTCAGCATCCGCGAGGACCATCGCAATGCTTTGTTTTAATTAAACAGTCG 5 0.125 No Hit CCCGTCGCGTATTTAAGTCGTCTGCAAAGGATTCAGCCCGCCGCCCGTGG 5 0.125 No Hit GGCATGATGACTTGGCCTCATCCTCTCCTTCCTCCGGCTTAACACCGGCG 5 0.125 No Hit GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 5 0.125 No Hit GTCCACAGCATGTCGGGCGTAGGGATCGATGACTCCAACCACATTTGCAC 5 0.125 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 5 0.125 No Hit GTTCAAAGACTCGATGGTTCGCGGGATTCTGCAATTCACACCAGGTATCG 5 0.125 No Hit AACGCATAACCGACATTGCATTTGTTCTTGAAATCAATTGGCAGGTAGAA 5 0.125 No Hit GTCAGTATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGC 5 0.125 No Hit GCCACTTACAATGCCCCGTCGCGTATTTAAGTCGTCTGCAAAGGATTCAG 5 0.125 No Hit AGCCTGTTGGCACAGAAACCATTAAGAGAACGCCCAATAACTTATTGGGT 5 0.125 No Hit GCCCGTTCATCTTCAGCGCAAGGGCGCTCGATCAGTGAGCTATTACGCAC 5 0.125 No Hit GTCCGTCTGGCCCGAGGAAACCTTTGCACGCCTCCGTTACCTTTTGGGAG 5 0.125 No Hit GTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAATAGGACCGG 5 0.125 No Hit GCCCGAGGAAACCTTTGCACGCCTCCGTTACCTTTTGGGAGGCCTACGCC 5 0.125 No Hit CGTGCGACGTGGGGCTGGATCTCAGTGGATCGTGGCAGCAAGGCCACTCT 5 0.125 No Hit GCGGTCTGTTCAGGGTTCCAAACTCATAGTGGCAACTAAACACGAGGGTT 5 0.125 No Hit GGACGGCGGGCATGGTGTTCTCATAACGCAGGATCTCGAGATCCGACGGC 5 0.125 No Hit ATGGCCCCTATCCTACCATCGAAAGTTGATAGGGCAGAAATTTGAATGAT 5 0.125 No Hit CCCGGCAATTTCAAGCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATC 5 0.125 No Hit GTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTGGTAGC 5 0.125 No Hit CATCGTTTACGGCTAGGACTACTGGGGTCTCTAATCCCATTTGCTCCCCT 5 0.125 No Hit GCTCCCGGTTCGCTCGCCGTTACTAGGGGAATCCTTGTAAGTTTCTTCTC 5 0.125 No Hit GCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTC 5 0.125 No Hit CTTGCCTACATTGTTCCATTGGCCAGAGGCTGTTCACCTTGGAGACCTGA 5 0.125 No Hit CGGGTGGGCTTACTACTTATATGCTTTCAGCAGTTATCCTCTCCGCACTT 5 0.125 No Hit CATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAG 5 0.125 No Hit GGGTGGGCTTACTACTTATATGCTTTCAGCAGTTATCCTCTCCGCACTTG 5 0.125 No Hit GTGCGACGTGGGGCTGGATCTCAGTGGATCGTGGCAGCAAGGCCACTCTG 5 0.125 No Hit GGGGCATTGGATTCTCACCAATGTTTTCGTTACTCAAGCCGACATTCTCG 5 0.125 No Hit CCTAGCTTTCGTCTCTCAGTGTCAGTGTCGGCCCAGCAGAGTGCTTTCGC 5 0.125 No Hit GGCAGGCCGTTAAGCAGAAAAGATAACTCTTCCCGAGGCCCCCGCCGGCG 5 0.125 No Hit CCGTGTCTCAGTCCCAGTGTGGCTGATCATCCTCTCGGACCAGCTACTGA 5 0.125 No Hit CCTCTGTCTTACCGCGGCTGCTGGCACAGAGTTAGCCGATGCTTATTCCT 5 0.125 No Hit GCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACGTC 5 0.125 No Hit CCCTAGAGTAACTTTTATCCGTTGAGCGACGGCCCTTCCACTCGGCACCG 5 0.125 No Hit GCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGC 5 0.125 No Hit CCCTCTAAGGCGGAACGCTCCCCTACCGATGCATTTTGACATCCCACAGC 5 0.125 No Hit GTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGA 5 0.125 No Hit CATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACC 5 0.125 No Hit GGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGA 5 0.125 No Hit ACCGCATTAATGGGCGAACAGCCCAACCCTTGGAACCACCTACAGCTCCA 5 0.125 No Hit CTCTCTCGTGTGCAACGGCTGTTCACACGAAGCCCTTCTCCACCTCAGAC 5 0.125 No Hit GTTCGCCAGGTTGTCTCTTGCCTGCTCATGGATTCAGCAGGCAGTTTAAA 5 0.125 No Hit GCCGTCAACCGCCACATCCCGGCTCGGGAAATCTTAACCCGATTCCCTTT 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0125 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.05 0.0 0.0 0.0 0.0 40-41 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.05 0.0 0.0 0.0 0.0 48-49 0.05 0.0 0.0 0.0 0.0 50-51 0.05 0.0 0.0 0.0 0.0 52-53 0.05 0.0 0.0 0.0 0.0 54-55 0.125 0.0 0.0 0.0 0.0 56-57 0.2875 0.0 0.0 0.0 0.0 58-59 0.375 0.0 0.0 0.0 0.0 60-61 0.375 0.0 0.0 0.0 0.0 62-63 0.375 0.0 0.0 0.0 0.0 64-65 0.3875 0.0 0.0 0.0 0.0 66-67 0.425 0.0 0.0 0.0 0.0 68-69 0.4625 0.0 0.0 0.0 0.0 70-71 0.6625 0.0 0.0 0.0 0.0 72-73 0.8125 0.0 0.0 0.0 0.0 74-75 0.9375 0.0 0.0 0.0 0.0 76-77 1.0 0.0 0.0 0.0 0.0 78-79 1.05 0.0 0.0 0.0 0.0 80-81 1.2625 0.0 0.0 0.0 0.0 82-83 1.5499999999999998 0.0 0.0 0.0 0.0 84-85 1.875 0.0 0.0 0.0 0.0 86-87 2.175 0.0 0.0 0.0 0.0 88-89 2.6875 0.0 0.0 0.0 0.0 90-91 3.35 0.0 0.0 0.0 0.0 92-93 3.9875 0.0 0.0 0.0 0.0 94-95 4.9625 0.0 0.0 0.0 0.0 96-97 5.4625 0.0 0.0 0.0 0.0 98-99 6.1125 0.0 0.0 0.0 0.0 100-101 6.9125 0.0 0.0 0.0 0.0 102-103 7.7875 0.0 0.0 0.0 0.0 104-105 8.4375 0.0 0.0 0.0 0.0 106-107 9.0125 0.0 0.0 0.0 0.0 108-109 9.9625 0.0 0.0 0.0 0.0 110-111 10.625 0.0 0.0 0.0 0.0 112-113 11.5125 0.0 0.0 0.0 0.0 114-115 12.4375 0.0 0.0 0.0 0.0 116-117 13.0125 0.0 0.0 0.0 0.0 118-119 13.95 0.0 0.0 0.0 0.0 120-121 14.55 0.0 0.0 0.0 0.0 122-123 15.2625 0.0 0.0 0.0 0.0 124-125 16.4375 0.0 0.0 0.0 0.0 126-127 17.387500000000003 0.0 0.0 0.0 0.0 128-129 18.175 0.0 0.0 0.0 0.0 130-131 19.549999999999997 0.0 0.0 0.0 0.0 132-133 20.3 0.0 0.0 0.0 0.0 134-135 21.0625 0.0 0.0 0.0 0.0 136-137 22.1125 0.0 0.0 0.0 0.0 138-139 23.65 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR13165369 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR13165369_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 54 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.08225 37.0 37.0 37.0 37.0 37.0 2 36.191 37.0 37.0 37.0 37.0 37.0 3 36.161 37.0 37.0 37.0 37.0 37.0 4 36.017 37.0 37.0 37.0 37.0 37.0 5 36.212 37.0 37.0 37.0 37.0 37.0 6 36.223 37.0 37.0 37.0 37.0 37.0 7 36.108 37.0 37.0 37.0 37.0 37.0 8 36.0595 37.0 37.0 37.0 37.0 37.0 9 35.9765 37.0 37.0 37.0 37.0 37.0 10-14 35.86749999999999 37.0 37.0 37.0 37.0 37.0 15-19 35.801100000000005 37.0 37.0 37.0 37.0 37.0 20-24 35.7533 37.0 37.0 37.0 37.0 37.0 25-29 35.4584 37.0 37.0 37.0 37.0 37.0 30-34 35.39970000000001 37.0 37.0 37.0 37.0 37.0 35-39 35.3407 37.0 37.0 37.0 37.0 37.0 40-44 35.2909 37.0 37.0 37.0 37.0 37.0 45-49 35.286950000000004 37.0 37.0 37.0 37.0 37.0 50-54 35.27419999999999 37.0 37.0 37.0 37.0 37.0 55-59 35.331300000000006 37.0 37.0 37.0 37.0 37.0 60-64 35.4311 37.0 37.0 37.0 37.0 37.0 65-69 35.31575 37.0 37.0 37.0 37.0 37.0 70-74 35.1129 37.0 37.0 37.0 37.0 37.0 75-79 35.1255 37.0 37.0 37.0 37.0 37.0 80-84 35.38915 37.0 37.0 37.0 37.0 37.0 85-89 35.55075 37.0 37.0 37.0 37.0 37.0 90-94 35.6649 37.0 37.0 37.0 37.0 37.0 95-99 35.70025 37.0 37.0 37.0 37.0 37.0 100-104 35.6088 37.0 37.0 37.0 37.0 37.0 105-109 35.5773 37.0 37.0 37.0 37.0 37.0 110-114 35.5421 37.0 37.0 37.0 37.0 37.0 115-119 35.4382 37.0 37.0 37.0 37.0 37.0 120-124 35.3643 37.0 37.0 37.0 37.0 37.0 125-129 35.36805 37.0 37.0 37.0 37.0 37.0 130-134 35.11 37.0 37.0 37.0 32.2 37.0 135-139 34.935199999999995 37.0 37.0 37.0 27.4 37.0 140-144 34.6375 37.0 37.0 37.0 25.0 37.0 145-149 34.31 37.0 37.0 37.0 25.0 37.0 150-151 34.0585 37.0 37.0 37.0 25.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 5 1.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 2.0 13 14.0 14 16.0 15 11.0 16 2.0 17 2.0 18 5.0 19 4.0 20 4.0 21 12.0 22 15.0 23 6.0 24 17.0 25 29.0 26 29.0 27 32.0 28 24.0 29 10.0 30 18.0 31 42.0 32 68.0 33 87.0 34 206.0 35 554.0 36 2567.0 37 223.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 55.8594730238394 17.8168130489335 5.244667503136763 21.07904642409034 2 36.525 21.075 23.05 19.35 3 27.575 20.525 28.125 23.775 4 31.374999999999996 30.125 18.05 20.45 5 34.8 30.225 17.2 17.775 6 28.675 34.65 16.7 19.975 7 27.1 22.025 29.375 21.5 8 29.825000000000003 22.3 21.475 26.400000000000002 9 29.95 20.325 25.174999999999997 24.55 10-14 30.514999999999997 25.27 20.405 23.810000000000002 15-19 31.669999999999998 23.915 21.515 22.900000000000002 20-24 31.29438831649495 24.157247174152246 20.991297389216765 23.55706712013604 25-29 31.42071035517759 24.972486243121562 20.755377688844423 22.851425712856425 30-34 30.912364945978393 24.17466986794718 21.75870348139256 23.154261704681872 35-39 30.49414824447334 25.977793338001398 20.54116234870461 22.98689606882065 40-44 31.167466986794718 25.07002801120448 20.68327330932373 23.07923169267707 45-49 28.41494523083079 25.93407692692442 21.887660681238433 23.763317161006352 50-54 30.544163248974694 24.352305691707514 21.531459437831348 23.572071621486444 55-59 30.33016508254127 24.387193596798397 21.295647823911956 23.986993496748372 60-64 32.064619385815746 24.08222466740022 20.55116534960488 23.301990597179152 65-69 31.479721958293744 24.463669550432567 20.283042456368456 23.773566034905237 70-74 31.340670335167587 24.232116058029014 21.490745372686344 22.936468234117058 75-79 31.257503001200483 24.054621848739497 21.853741496598637 22.834133653461386 80-84 31.092773193298324 24.53613403350838 21.085271317829456 23.28582145536384 85-89 30.318643389525285 23.685658546345856 21.51968385773598 24.476014206392875 90-94 31.524457337201163 24.877463238971693 20.681204361308392 22.916875062518756 95-99 32.03300825206302 25.431357839459867 19.91497874468617 22.62065516379095 100-104 31.585792896448222 25.602801400700347 20.56528264132066 22.246123061530763 105-109 31.525762881440723 24.79239619809905 21.490745372686344 22.191095547773887 110-114 32.219665899769936 25.387616284885468 20.326097829348804 22.0666199859958 115-119 32.53126563281641 25.192596298149073 19.889944972486244 22.386193096548272 120-124 32.57628814407204 25.84792396198099 20.28514257128564 21.29064532266133 125-129 33.00985443449552 25.391426141763795 19.10859886949127 22.490120554249412 130-134 33.70685342671336 25.652826413206604 19.074537268634316 21.56578289144572 135-139 33.84692346173087 24.757378689344673 20.040020010005 21.35567783891946 140-144 35.6556967090127 24.25227568270481 19.55586676002801 20.536160848254475 145-149 36.383191595797896 25.192596298149073 18.7943971985993 19.629814907453728 150-151 37.056028014007005 25.025012506253123 18.55927963981991 19.35967983991996 >>END_MODULE >>Per sequence GC content fail #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.5 6 0.5 7 0.5 8 1.0 9 2.0 10 1.5 11 0.0 12 0.5 13 0.5 14 0.0 15 0.5 16 0.5 17 0.0 18 0.5 19 0.5 20 0.0 21 0.0 22 0.0 23 0.5 24 1.0 25 2.0 26 1.5 27 0.5 28 1.5 29 2.0 30 1.5 31 2.5 32 4.0 33 4.5 34 4.0 35 16.5 36 22.5 37 17.0 38 19.5 39 41.5 40 51.5 41 44.5 42 67.0 43 78.0 44 82.0 45 96.5 46 108.5 47 130.0 48 130.5 49 156.5 50 174.0 51 178.0 52 180.5 53 215.5 54 272.5 55 262.0 56 226.5 57 189.0 58 172.5 59 167.0 60 132.0 61 81.5 62 69.5 63 57.5 64 39.0 65 30.0 66 26.5 67 42.5 68 53.5 69 42.5 70 29.0 71 26.5 72 20.0 73 15.0 74 12.5 75 11.0 76 18.5 77 13.5 78 8.5 79 9.0 80 6.5 81 4.0 82 1.0 83 3.5 84 5.5 85 3.5 86 3.0 87 4.0 88 3.0 89 4.5 90 7.5 91 7.5 92 7.5 93 10.5 94 11.0 95 9.5 96 8.5 97 7.5 98 7.0 99 4.0 100 5.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.375 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.03 25-29 0.05 30-34 0.04 35-39 0.03 40-44 0.04 45-49 0.034999999999999996 50-54 0.03 55-59 0.05 60-64 0.03 65-69 0.015 70-74 0.05 75-79 0.04 80-84 0.025 85-89 0.045 90-94 0.03 95-99 0.025 100-104 0.05 105-109 0.05 110-114 0.03 115-119 0.05 120-124 0.05 125-129 0.045 130-134 0.05 135-139 0.05 140-144 0.03 145-149 0.05 150-151 0.05 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels warn #Total Deduplicated Percentage 57.325 #Duplication Level Percentage of deduplicated Percentage of total 1 63.58482337549063 36.449999999999996 2 20.19188835586568 23.150000000000002 3 7.76275621456607 13.350000000000001 4 3.3144352376798953 7.6 5 1.962494548626254 5.625 6 1.569995638901003 5.4 7 0.436109899694723 1.7500000000000002 8 0.39249890972525076 1.7999999999999998 9 0.26166593981683384 1.35 >10 0.5233318796336677 3.5249999999999995 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences warn #Sequence Count Percentage Possible Source GTTCGATCCTGGCTCAGGATGAACGCTGGCGGCATGCTTAACACATGCAA 17 0.42500000000000004 No Hit GAGCGATTTGTCTGGTTAATTCCGTTAACGAACGAGACCTCAGCCTGCTA 15 0.375 No Hit GCCGTTCTTAGTTGGTGGAGCGATTTGTCTGGTTAATTCCGTTAACGAAC 13 0.325 No Hit ACCAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGAT 12 0.3 No Hit CCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGCAA 11 0.27499999999999997 No Hit AGAAAATGCCTCGAGCCGAGGTCCGAGTACCAAGCGCTGCAGCGCTGAAG 11 0.27499999999999997 No Hit CTTACCAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTT 11 0.27499999999999997 No Hit CAGTGACCAGGCCCGGGCGACTGTTTACCAAAAACACAGGTCTCCGCAAA 11 0.27499999999999997 No Hit GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 10 0.25 No Hit CTGGTTAATTCCGTTAACGAACGAGACCTCAGCCTGCTAACTAGCTATGC 10 0.25 No Hit GGCCTATCGATCCTTTAGATCTTCGGAGTTTGAAGCTAGAGGTGTCAGAA 10 0.25 No Hit CACTAGCTTACGCTCTGACCCGAGTAGCATGGGGCACGTGGAATCCCGTG 10 0.25 No Hit GGCTCATTAAATCAGTTATAGTTTGTTTGATGGTACGTGCTACTCGGATA 9 0.22499999999999998 No Hit GGCCGTTCTTAGTTGGTGGAGCGATTTGTCTGGTTAATTCCGTTAACGAA 9 0.22499999999999998 No Hit GTCAGGCGGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGA 9 0.22499999999999998 No Hit GTTCTGGGCCGCACGCGCGCTACACTGATGTATTCAACGAGTATATAGCC 9 0.22499999999999998 No Hit GCCGGCGACTCATAGGCAGTGGCTTGGTTAAGGGAACGGAACCCACCGGA 9 0.22499999999999998 No Hit CAGAAAAGTTACCACAGGGATAACTGGCTTGTGGCAGCCAAGCGTTCATA 9 0.22499999999999998 No Hit CGGAGCAATGCCGCGTGGAGGTGGAAGGCCTACGGGTCGTCAACTTCTTT 8 0.2 No Hit GCTAGCTTCTTAGAGGGACTATCGCCGTTTAGGCGACGGAAGTTTGAGGC 8 0.2 No Hit GGCGGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAA 8 0.2 No Hit GATGTTTTCATTAATCAAGAACGAAAGTTGGGGGCTCGAAGACGATCAGA 8 0.2 No Hit CTTGGATTTATGAAAGACGAACAACTGCGAAAGCATTTGCCAAGGATGTT 8 0.2 No Hit GTGAAAGCGTGGCCTATCGATCCTTTAGATCTTCGGAGTTTGAAGCTAGA 8 0.2 No Hit GGCTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAG 8 0.2 No Hit ACTTACCAGGTCCAGACATAGCAAGGATTGACAGACTGAGAGCTCTTTCT 8 0.2 No Hit GTTAGTTTTACCCTACTGATGACCGTGCCGCGATAGTAATTCAACCTAGT 8 0.2 No Hit GATAACTCGACGGATCGCACGGCCCTCGTGCCGGCGACGCATCATTCAAA 7 0.17500000000000002 No Hit GTTGCTAATACCCCGTAGGCTGAGGAGCAAAAGGAGAAATCCGCCCAAGG 7 0.17500000000000002 No Hit GCGATTTGTCTGGTTAATTCCGTTAACGAACGAGACCTCAGCCTGCTAAC 7 0.17500000000000002 No Hit GGGGCGCCTGGGAGGGTGAGAGCCCCGTCCGGCCCGGACCCTGTCGCCCC 7 0.17500000000000002 No Hit CGTTCATAGCGACGTTGCTTTTTGATCCTTCGATGTCGGCTCTTCCTATC 7 0.17500000000000002 No Hit GTTTGAGGCAATAACAGGTCTGTGATGCCCTTAGATGTTCTGGGCCGCAC 7 0.17500000000000002 No Hit GTCTGACATGCGTGCGAGTCGACGGGTTCTGAAACCTGGGATGCGCAAGG 7 0.17500000000000002 No Hit GGAGTCTGACATGCGTGCGAGTCGACGGGTTCTGAAACCTGGGATGCGCA 7 0.17500000000000002 No Hit GTTTAAGCATATAAATAAGCGGAGGAGAAGAAACTTACAAGGATTCCCCT 7 0.17500000000000002 No Hit GTTTGAAGCTAGAGGTGTCAGAAAAGTTACCACAGGGATAACTGGCTTGT 7 0.17500000000000002 No Hit AGTTGGTGGAGCGATTTGTCTGGTTAATTCCGTTAACGAACGAGACCTCA 6 0.15 No Hit GTACGAGAGGACCGGGAAGGACGCACCTCTGGTGTACCAGTTATCGTGCC 6 0.15 No Hit GTTAAGTCTCGCAACGAGCGCAACCCTCGTGTTTAGTTGCCACTATGAGT 6 0.15 No Hit AGCGTGGCCTATCGATCCTTTAGATCTTCGGAGTTTGAAGCTAGAGGTGT 6 0.15 No Hit GGATGAACGCTGGCGGCATGCTTAACACATGCAAGTCGAACGGGAAGTGG 6 0.15 No Hit GGAGCGATTTGTCTGGTTAATTCCGTTAACGAACGAGACCTCAGCCTGCT 6 0.15 No Hit GTTCCATGTGAACGGCACTTGCACATGGGTAAGCCGATCCTAAGGGACGG 6 0.15 No Hit GGGATAACATCATAGGATTCCGGTCCTATTGTGTTGGCCTTCGGGATCGG 6 0.15 No Hit GTCATATGCTTGTCTCAAAGATTAAGCCATGCATGTGCAAGTATGAACTA 6 0.15 No Hit GGAAGGGCGTAGCAAGCGACGAAATGCTTCGGGGAGTTGAAAATAAGCAT 6 0.15 No Hit GTTGAAGAATGAGCCGGCGACTCATAGGCAGTGGCTTGGTTAAGGGAACG 6 0.15 No Hit GGTCAGGCGGGACTACCCGCTGAGTTTAAGCATATAAATAAGCGGAGGAG 6 0.15 No Hit GGAGAATTAGGGTTCGATTCCGGAGAGGGAGCCTGAGAAACGGCTACCAC 6 0.15 No Hit GGAAACAGCCCGGATCACCAGCTAAGGCCCCTAAATGACCGCTCAGTGAT 6 0.15 No Hit CCTGACACGGGGAGGTAGTGACAATAAATAACAATACCGGGCACATTAGT 6 0.15 No Hit GAACCGACTGATGTTGAAGAATCAGCGGATGAGTTGTGGTTAGGGGTGAA 6 0.15 No Hit GTCAAAGTGAAGAAATTCAACCAAGCGCGGGTAAACGGCGGGAGTAACTA 6 0.15 No Hit AGCTAGCTTCTTAGAGGGACTATCGCCGTTTAGGCGACGGAAGTTTGAGG 6 0.15 No Hit GGAGAGGATGAGGCCAAGTCATCATGCCCCTTATGCCCTGGGCGACACAC 6 0.15 No Hit GTTCAGCCGGAGGTAGGGTCCAGTGGCCGGAAGAGCACCGCACGTCGCGC 6 0.15 No Hit GACATAGCAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGGGTG 6 0.15 No Hit GGGAGCGTTCCGCCTTAGAGGGAAGCAACCGCGAAAGCGGGGGTCGACGA 6 0.15 No Hit GTACAATCTAAATCCCTTAACGAGGATCCATTGGAGGGCAAGTCTGGTGC 6 0.15 No Hit GTCCCCTGGTGTGTGTTGGTTTGGTGCAAACAGTTGTTGGTATGGCAGTA 6 0.15 No Hit GACCGCTCAGTGATAAAGGAGGTGGGGGTGCAAAGACAGCCAGGAGGTTT 6 0.15 No Hit AACAACTGGAAACGGTTGCTAATACCCCGTAGGCTGAGGAGCAAAAGGAG 6 0.15 No Hit GGGTGATCTATCCATGACCAGGATGAAGCTTGGATGAAACTAAGCAGAGG 6 0.15 No Hit GAAGAAACTTACAAGGATTCCCCTAGTAACGGCGAGCGAACCGGGAGCAG 6 0.15 No Hit GACGCAATGTGATTTCTGCCCAGTGCTCTGAATGTCAAAGTGAAGAAATT 6 0.15 No Hit CTGGCTTGTGGCAGCCAAGCGTTCATAGCGACGTTGCTTTTTGATCCTTC 6 0.15 No Hit CTTGGATGAAACTAAGCAGAGGTCCGAACCGACTGATGTTGAAGAATCAG 6 0.15 No Hit AGTCTTCCATGCTTACCCCTGAAAACAGTGATCTCATCAAGCAGTCTATC 6 0.15 No Hit GATGAGGCCAAGTCATCATGCCCCTTATGCCCTGGGCGACACACGTGCTA 6 0.15 No Hit GATTAGAGACCCCAGTAGTCCTAGCCGTAAACGATGGATACTAGGTGCTG 6 0.15 No Hit GCGAAATTCCTTGTCGGGTAAGTTCCGACCCGCACGAAAGGCGTAACGAT 6 0.15 No Hit GCTAACTCCAAAAACCCGTCCTCAGTTCGGATTGCAGGCTGCAACTCGCC 6 0.15 No Hit GTTATCTTTTCTGCTTAACGGCCTGCCAACCCTGGAATCGGTTCAGCCGG 5 0.125 No Hit CAGAACTGGTACGGACAAGGGGAATCCGACTGTTTAATTAAAACAAAGCA 5 0.125 No Hit GCTCGTTTGATTCTGATTTCCAGTACGAATACGAACCGTGAAAGCGTGGC 5 0.125 No Hit CTAGATATGACCCCAAAATAACAGGGGTCAAGGTCGGCCAGTGAGACGAT 5 0.125 No Hit GGACAAAGGGTCGCGATCTCGCGAGGGTGAGCTAACTCCAAAAACCCGTC 5 0.125 No Hit AAAGCGTCTGTAGGTGGCTTTTCAAGTCCGCCGTCAAATCCCAGGGCTCA 5 0.125 No Hit ATTGGGAACAAGGCATTGTACAGCAATTTATAGGTGTCCTTAGTAGGTTA 5 0.125 No Hit GGCTGATCTTCCCCAAGAGTCCACATCGACGGGAAGGTTTGGCACCTCGA 5 0.125 No Hit GGCACAGATTATCCAAACTATGTTTTCTTTTCTGGTGACTCCTTTTTGAC 5 0.125 No Hit TTCAAATTTCTGCCCTATCAACTTTCGATGGTAGGATAGGGGCCTACCAT 5 0.125 No Hit CCTGGCTCAGGATGAACGCTGGCGGCATGCTTAACACATGCAAGTCGAAC 5 0.125 No Hit GCCGGCGATGCGCTCCTAGCCTTAATTGGCCGGGTCGTGCCTCCGGCATC 5 0.125 No Hit CATCATTCAAATTTCTGCCCTATCAACTTTCGATGGTAGGATAGGGGCCT 5 0.125 No Hit CAACAACTGGAAACGGTTGCTAATACCCCGTAGGCTGAGGAGCAAAAGGA 5 0.125 No Hit TGACTCTAGTCCGACTTTGTGAAATGACTTGAGAGGTGTAGGATAAGTGG 5 0.125 No Hit CTTGCGGTGGATACCTAGGCACCCAGAGACGAGGAAGGGCGTAGCAAGCG 5 0.125 No Hit GGGAGCTTGACTGCAAGACTCACCCGTCGAGCAGAGACGAAAGTCGGCCT 5 0.125 No Hit GCCATCCCTCCGCAGCTAGCTTCTTAGAGGGACTATCGCCGTTTAGGCGA 5 0.125 No Hit ATTGATGATAAAAAACATTCCAAACAAGTACACTTCTAAGATGCTTTTGG 5 0.125 No Hit CCTCCTTTTGGCTCCAAGGCCCGGTCTGACCGGGCCGATCCGGGCGGAAG 5 0.125 No Hit CGATGTCGGCTCTTCGCCACCTGGAGCTGTAGGTGGTTCCAAGGGTTGGG 5 0.125 No Hit GCTTGGATGAAACTAAGCAGAGGTCCGAACCGACTGATGTTGAAGAATCA 5 0.125 No Hit GTCCGAGTACCAAGCGCTGCAGCGCTGAAGTATGAGCCCCGTGGACTAGC 5 0.125 No Hit ACAGGGGTCAAGGTCGGCCAGTGAGACGATGGGGGATAAGCTTCATCGTC 5 0.125 No Hit CTTTGGGCCGGGTCGGCCGGTCCGCCTCACGGCGAGCACCGACCTACTCG 5 0.125 No Hit ATTCAACCTAGTACGAGAGGAACCGTTGATTCACACAATTGGTCATCGCG 5 0.125 No Hit GGTCCGAGTACCAAGCGCTGCAGCGCTGAAGTATGAGCCCCGTGGACTAG 5 0.125 No Hit GTACCGTTCACGCCCGGTCGTACTCATAACCGCATCAGGTCTCCAAGGTG 5 0.125 No Hit GGAGGAGCCGGCGTCACGTCCTCGCCGGAGGCCGCTGCGGCGGCCGCCGC 5 0.125 No Hit CCGCTGAGTTTAAGCATATAAATAAGCGGAGGAGAAGAAACTTACAAGGA 5 0.125 No Hit GGCAATAACAGGTCTGTGATGCCCTTAGATGTTCTGGGCCGCACGCGCGC 5 0.125 No Hit AGTGACCAGGCCCGGGCGACTGTTTACCAAAAACACAGGTCTCCGCAAAG 5 0.125 No Hit GAGAGACGAAAGCTAGGGGAGCAAATGGGATTAGAGACCCCAGTAGTCCT 5 0.125 No Hit CCCAAATAGGTCAACCTTTTAAACTGCCTGCTGAATCCATGAGCAGGCAA 5 0.125 No Hit GGAAAGTGATCTCTGACCGCGTGCCTGTTGAAGAATGAGCCGGCGACTCA 5 0.125 No Hit GGTTGCTTAAGACAGCAGGACGGTGGCCATGGAAGTCGGAATCCGCTAAG 5 0.125 No Hit CCTTACCAGGGCTTGACATGCCGCGAATCCTCTTGAAAGAGAGGGGTGCC 5 0.125 No Hit GCGGGCTTTGCTCGCTGATCCGATGATTCATGATAACTCGACGGATCGCA 5 0.125 No Hit GGCAGAGGGAATTTCCGGTGGAGCGGTGAAATGCATTGAGATCGGAAAGA 5 0.125 No Hit CGTAGCGAAAGCGAGTCTTCATAGGGCGATTGTCACTGCTTATGGACCCG 5 0.125 No Hit GGGATGCGCAAGGAAGCTGACGAGCGGGAGGCCCTCACGGGCCGCACCGC 5 0.125 No Hit GCTGACGCGGGCTTTGCTCGCTGATCCGATGATTCATGATAACTCGACGG 5 0.125 No Hit GGACATAATTATTACGGCGAACCCGCGTGGCCCAACGATCTTTTATATAT 5 0.125 No Hit TGGCACGGCCGGTACCCGCGCGCCGCAAGGCGTGTCCCTCGGGGCACTGC 5 0.125 No Hit GGAAAAGAAAGCAAAAGCGATTCCCGTAGTAGCGGCGAGCGAAATGGGAG 5 0.125 No Hit >>END_MODULE >>Adapter Content fail #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0125 0.0 0.0 0.0 0.0 32-33 0.025 0.0 0.0 0.0 0.0 34-35 0.025 0.0 0.0 0.0 0.0 36-37 0.025 0.0 0.0 0.0 0.0 38-39 0.05 0.0 0.0 0.0 0.0 40-41 0.05 0.0 0.0 0.0 0.0 42-43 0.05 0.0 0.0 0.0 0.0 44-45 0.05 0.0 0.0 0.0 0.0 46-47 0.05 0.0 0.0 0.0 0.0 48-49 0.05 0.0 0.0 0.0 0.0 50-51 0.05 0.0 0.0 0.0 0.0 52-53 0.05 0.0 0.0 0.0 0.0 54-55 0.125 0.0 0.0 0.0 0.0 56-57 0.25 0.0 0.0 0.0 0.0 58-59 0.325 0.0 0.0 0.0 0.0 60-61 0.325 0.0 0.0 0.0 0.0 62-63 0.325 0.0 0.0 0.0 0.0 64-65 0.325 0.0 0.0 0.0 0.0 66-67 0.35 0.0 0.0 0.0 0.0 68-69 0.3875 0.0 0.0 0.0 0.0 70-71 0.5875 0.0 0.0 0.0 0.0 72-73 0.725 0.0 0.0 0.0 0.0 74-75 0.8375 0.0 0.0 0.0 0.0 76-77 0.9 0.0 0.0 0.0 0.0 78-79 0.95 0.0 0.0 0.0 0.0 80-81 1.1625 0.0 0.0 0.0 0.0 82-83 1.4500000000000002 0.0 0.0 0.0 0.0 84-85 1.7625 0.0 0.0 0.0 0.0 86-87 2.05 0.0 0.0 0.0 0.0 88-89 2.5625 0.0 0.0 0.0 0.0 90-91 3.2625 0.0 0.0 0.0 0.0 92-93 3.925 0.0 0.0 0.0 0.0 94-95 4.8875 0.0 0.0 0.0 0.0 96-97 5.4125 0.0 0.0 0.0 0.0 98-99 6.0625 0.0 0.0 0.0 0.0 100-101 6.8625 0.0 0.0 0.0 0.0 102-103 7.737500000000001 0.0 0.0 0.0 0.0 104-105 8.3625 0.0 0.0 0.0 0.0 106-107 8.9375 0.0 0.0 0.0 0.0 108-109 9.8875 0.0 0.0 0.0 0.0 110-111 10.55 0.0 0.0 0.0 0.0 112-113 11.45 0.0 0.0 0.0 0.0 114-115 12.3875 0.0 0.0 0.0 0.0 116-117 12.9625 0.0 0.0 0.0 0.0 118-119 13.9 0.0 0.0 0.0 0.0 120-121 14.475 0.0 0.0 0.0 0.0 122-123 15.1875 0.0 0.0 0.0 0.0 124-125 16.3625 0.0 0.0 0.0 0.0 126-127 17.3 0.0 0.0 0.0 0.0 128-129 18.075 0.0 0.0 0.0 0.0 130-131 19.475 0.0 0.0 0.0 0.0 132-133 20.237499999999997 0.0 0.0 0.0 0.0 134-135 21.0125 0.0 0.0 0.0 0.0 136-137 22.05 0.0 0.0 0.0 0.0 138-139 23.5875 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GTGTACG 60 0.004491891 14.500001 140-144 >>END_MODULE Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214472 spots for SRR13165369.sra Written 1214472 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra Read 1214454 spots for SRR13165369.sra Written 1214454 spots for SRR13165369.sra SRR ids: ['SRR13165369.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_oxzvxiqm SRR13165369.sra spots: 24289098 blocks: [[1, 1214454], [1214455, 2428908], [2428909, 3643362], [3643363, 4857816], [4857817, 6072270], [6072271, 7286724], [7286725, 8501178], [8501179, 9715632], [9715633, 10930086], [10930087, 12144540], [12144541, 13358994], [13358995, 14573448], [14573449, 15787902], [15787903, 17002356], [17002357, 18216810], [18216811, 19431264], [19431265, 20645718], [20645719, 21860172], [21860173, 23074626], [23074627, 24289098]] SRR13165369 file size 8232797 SRR13165369 completed basic pipeline successfully skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -q 10 -k inf -t 20 -o SRR13165369 SRR13165369_1.fastq SRR13165369_2.fastq Input file: SRR13165369_1.fastq Paired file: SRR13165369_2.fastq trimmed: SRR13165369-trimmed-pair1.fastq, SRR13165369-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- paired 3' end adapter sequence (-y): AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTA -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- end quality threshold (-q): 10 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- number of concurrent threads (-t): 20 Sat Dec 7 16:20:07 2024 >> started Sat Dec 7 16:20:34 2024 >> done (26.441s) 24289098 read pairs processed; of these: 769 ( 0.00%) short read pairs filtered out after trimming by size control 507005 ( 2.09%) empty read pairs filtered out after trimming by size control 23781324 (97.91%) read pairs available; of these: 6867488 (28.88%) trimmed read pairs available after processing 16913836 (71.12%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 50 0.00% 19 71 0.00% 20 111 0.00% 21 203 0.00% 22 103 0.00% 23 134 0.00% 24 176 0.00% 25 138 0.00% 26 188 0.00% 27 295 0.00% 28 312 0.00% 29 345 0.00% 30 371 0.00% 31 350 0.00% 32 386 0.00% 33 449 0.00% 34 472 0.00% 35 423 0.00% 36 416 0.00% 37 534 0.00% 38 642 0.00% 39 724 0.00% 40 847 0.00% 41 943 0.00% 42 874 0.00% 43 848 0.00% 44 1028 0.00% 45 1048 0.00% 46 1043 0.00% 47 1303 0.01% 48 1391 0.01% 49 1644 0.01% 50 1632 0.01% 51 2063 0.01% 52 2265 0.01% 53 2423 0.01% 54 2552 0.01% 55 2762 0.01% 56 3186 0.01% 57 3421 0.01% 58 3727 0.02% 59 4251 0.02% 60 4517 0.02% 61 5363 0.02% 62 5775 0.02% 63 6250 0.03% 64 6678 0.03% 65 7071 0.03% 66 7573 0.03% 67 7947 0.03% 68 9318 0.04% 69 9576 0.04% 70 10602 0.04% 71 11520 0.05% 72 13597 0.06% 73 14833 0.06% 74 16747 0.07% 75 16677 0.07% 76 17534 0.07% 77 19659 0.08% 78 20718 0.09% 79 24352 0.10% 80 25911 0.11% 81 29443 0.12% 82 30671 0.13% 83 33555 0.14% 84 36591 0.15% 85 39845 0.17% 86 43799 0.18% 87 45311 0.19% 88 48388 0.20% 89 49366 0.21% 90 51678 0.22% 91 57838 0.24% 92 61257 0.26% 93 66441 0.28% 94 65757 0.28% 95 71211 0.30% 96 74899 0.31% 97 76720 0.32% 98 81422 0.34% 99 85962 0.36% 100 84466 0.36% 101 86691 0.36% 102 83390 0.35% 103 83734 0.35% 104 87199 0.37% 105 83553 0.35% 106 85767 0.36% 107 90858 0.38% 108 91177 0.38% 109 97486 0.41% 110 96483 0.41% 111 99042 0.42% 112 100743 0.42% 113 92891 0.39% 114 98577 0.41% 115 104341 0.44% 116 106155 0.45% 117 99845 0.42% 118 99235 0.42% 119 99350 0.42% 120 113225 0.48% 121 106611 0.45% 122 103917 0.44% 123 112283 0.47% 124 110488 0.46% 125 116303 0.49% 126 118958 0.50% 127 116716 0.49% 128 113568 0.48% 129 116573 0.49% 130 111870 0.47% 131 115677 0.49% 132 116780 0.49% 133 117772 0.50% 134 114524 0.48% 135 116988 0.49% 136 121457 0.51% 137 116990 0.49% 138 123850 0.52% 139 116272 0.49% 140 113969 0.48% 141 121177 0.51% 142 120611 0.51% 143 123822 0.52% 144 128698 0.54% 145 124635 0.52% 146 123620 0.52% 147 124106 0.52% 148 116823 0.49% 149 117705 0.49% 150 122001 0.51% 151 16913836 71.12% 23781324 reads passed initial QC criterion=sequence-density sequence-density=3.52 sequence-density-rank=1 fanout-score=1.97 fanout-score-rank=26 prefix-density=3.49 prefix-fanout=2.0 sequence=GTATTTAGCCTTG criterion=fanout-score sequence-density=0.38 sequence-density-rank=22 fanout-score=28.08 fanout-score-rank=1 prefix-density=0.35 prefix-fanout=28.1 sequence=GGATCGGAAGAGCACACGTCTGAACTCCAGTCACACGACAGAATCTCGG criterion=sequence-density sequence-density=2.47 sequence-density-rank=1 fanout-score=2.07 fanout-score-rank=26 prefix-density=2.59 prefix-fanout=2.0 sequence=AGCCAGAGGAAA criterion=fanout-score sequence-density=0.08 sequence-density-rank=29 fanout-score=52.23 fanout-score-rank=1 prefix-density=3.79 prefix-fanout=1.0 sequence=ACGAACGAGACTCTAGCCTGCTAAATAGTCGTTTCCGGCTTCCTTTGTGCAGCCGGCGAAGACAAATCTTCTTAGAGG Potential 3prime adapter identified. Now checking if in reference sequence /dee2/code/volunteer_pipeline.sh: line 905: -f: command not found /dee2/code/volunteer_pipeline.sh: line 906: -f: command not found Adapter seq not found in reference. Now shuffling file before clipping skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -t 20 -x GTATTTAGCCTTG -y AGCCAGAGGAAA -o SRR13165369 SRR13165369_1.fastq SRR13165369_2.fastq Input file: SRR13165369_1.fastq Paired file: SRR13165369_2.fastq trimmed: SRR13165369-trimmed-pair1.fastq, SRR13165369-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): GTATTTAGCCTTG -- paired 3' end adapter sequence (-y): AGCCAGAGGAAA -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- number of concurrent threads (-t): 20 Sat Dec 7 16:22:16 2024 >> started Sat Dec 7 16:22:27 2024 >> done (11.619s) 11890662 read pairs processed; of these: 448 ( 0.00%) short read pairs filtered out after trimming by size control 1896 ( 0.02%) empty read pairs filtered out after trimming by size control 11888318 (99.98%) read pairs available; of these: 93 ( 0.00%) trimmed read pairs available after processing 11888225 (100.00%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 30 0.00% 19 43 0.00% 20 55 0.00% 21 97 0.00% 22 53 0.00% 23 57 0.00% 24 89 0.00% 25 64 0.00% 26 89 0.00% 27 157 0.00% 28 141 0.00% 29 179 0.00% 30 191 0.00% 31 158 0.00% 32 177 0.00% 33 224 0.00% 34 228 0.00% 35 215 0.00% 36 219 0.00% 37 253 0.00% 38 335 0.00% 39 343 0.00% 40 389 0.00% 41 488 0.00% 42 449 0.00% 43 438 0.00% 44 544 0.00% 45 532 0.00% 46 521 0.00% 47 629 0.01% 48 697 0.01% 49 812 0.01% 50 848 0.01% 51 987 0.01% 52 1096 0.01% 53 1222 0.01% 54 1248 0.01% 55 1347 0.01% 56 1611 0.01% 57 1685 0.01% 58 1848 0.02% 59 2107 0.02% 60 2239 0.02% 61 2678 0.02% 62 2860 0.02% 63 3089 0.03% 64 3309 0.03% 65 3602 0.03% 66 3752 0.03% 67 4013 0.03% 68 4643 0.04% 69 4791 0.04% 70 5322 0.04% 71 5686 0.05% 72 6804 0.06% 73 7396 0.06% 74 8268 0.07% 75 8430 0.07% 76 8688 0.07% 77 9663 0.08% 78 10346 0.09% 79 12138 0.10% 80 12873 0.11% 81 14610 0.12% 82 15400 0.13% 83 16916 0.14% 84 18374 0.15% 85 20120 0.17% 86 21960 0.18% 87 22544 0.19% 88 23879 0.20% 89 24699 0.21% 90 25689 0.22% 91 28996 0.24% 92 30775 0.26% 93 33203 0.28% 94 32950 0.28% 95 35654 0.30% 96 37383 0.31% 97 38121 0.32% 98 40725 0.34% 99 43045 0.36% 100 42037 0.35% 101 43195 0.36% 102 41650 0.35% 103 41818 0.35% 104 43654 0.37% 105 41549 0.35% 106 42966 0.36% 107 45597 0.38% 108 45534 0.38% 109 48497 0.41% 110 48190 0.41% 111 49161 0.41% 112 50294 0.42% 113 46584 0.39% 114 49385 0.42% 115 52073 0.44% 116 53203 0.45% 117 49994 0.42% 118 49565 0.42% 119 49640 0.42% 120 56639 0.48% 121 53282 0.45% 122 51782 0.44% 123 55819 0.47% 124 55396 0.47% 125 57589 0.48% 126 59501 0.50% 127 58090 0.49% 128 56764 0.48% 129 58448 0.49% 130 56252 0.47% 131 58207 0.49% 132 58389 0.49% 133 58496 0.49% 134 57166 0.48% 135 58632 0.49% 136 60647 0.51% 137 58347 0.49% 138 61954 0.52% 139 58248 0.49% 140 56869 0.48% 141 60695 0.51% 142 60685 0.51% 143 62108 0.52% 144 64662 0.54% 145 62566 0.53% 146 62325 0.52% 147 61811 0.52% 148 58557 0.49% 149 58997 0.50% 150 61150 0.51% 151 8455131 71.12% criterion=sequence-density sequence-density=3.49 sequence-density-rank=1 fanout-score=1.97 fanout-score-rank=25 prefix-density=3.47 prefix-fanout=2.0 sequence=GTATTTAGCCTTG criterion=fanout-score sequence-density=0.37 sequence-density-rank=22 fanout-score=28.02 fanout-score-rank=1 prefix-density=0.34 prefix-fanout=28.0 sequence=GGATCGGAAGAGCACACGTCTGAACTCCAGTCACACGACAGAATCTCGG criterion=sequence-density sequence-density=2.44 sequence-density-rank=1 fanout-score=2.09 fanout-score-rank=27 prefix-density=2.58 prefix-fanout=2.0 sequence=AGCCAGAGGAAA criterion=fanout-score sequence-density=0.09 sequence-density-rank=28 fanout-score=32.11 fanout-score-rank=1 prefix-density=1.50 prefix-fanout=1.9 sequence=CGTGAGCTGGGATTAGACCGTCG SRR13165369 testing PE reads STAR mapping to Ensembl genome Started job on | Dec 07 16:23:23 Started mapping on | Dec 07 16:23:23 Finished on | Dec 07 16:26:54 Mapping speed, Million of reads per hour | 405.71 Number of input reads | 23778980 Average input read length | 283 UNIQUE READS: Uniquely mapped reads number | 7780259 Uniquely mapped reads % | 32.72% Average mapped length | 289.09 Number of splices: Total | 3681531 Number of splices: Annotated (sjdb) | 3408507 Number of splices: GT/AG | 3625826 Number of splices: GC/AG | 42289 Number of splices: AT/AC | 1788 Number of splices: Non-canonical | 11628 Mismatch rate per base, % | 0.20% Deletion rate per base | 0.01% Deletion average length | 2.20 Insertion rate per base | 0.01% Insertion average length | 2.24 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 5002936 % of reads mapped to multiple loci | 21.04% Number of reads mapped to too many loci | 1812001 % of reads mapped to too many loci | 7.62% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 4.60% % of reads unmapped: other | 34.02% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 10995937 10995937 10995937 N_multimapping 5002936 5002936 5002936 N_noFeature 3429916 7626458 3483900 N_ambiguous 144135 1083 44840 UnstrandedReadsAssigned:4206208 PositiveStrandReadsAssigned:152718 NegativeStrandReadsAssigned:4251519 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=133 echo kmer=129 SRR13165369 Starting Kallisto paired end mapping to ensembl reference transcriptome [quant] fragment length distribution will be estimated from the data [index] k-mer length: 31 [index] number of targets: 52,972 [index] number of k-mers: 66,720,672 [index] number of equivalence classes: 111,837 [quant] running in paired-end mode [quant] will process pair 1: SRR13165369-trimmed-pair1.fastq SRR13165369-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 23,778,980 reads, 5,535,912 reads pseudoaligned [quant] estimated average fragment length: 216.651 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,134 rounds 52973 SRR13165369.ke.tsv 35125 SRR13165369.se.tsv 88098 total ==> SRR13165369.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 720.753 7.95314e-05 1.66362e-05 PNS24247 1044 828.349 19.8482 3.61253 PNS24249 1928 1712.35 29.9755 2.63923 PNS24246 1044 828.349 19.8482 3.61253 PNS24248 1044 828.349 19.8482 3.61253 PNS24244 1471 1255.35 35.4798 4.26108 PNS24243 293 121.718 0 0 KQK14069 1603 1387.35 427.987 46.5101 KQK14071 474 273.972 0 0 ==> SRR13165369.se.tsv <== BRADI_1g14170v3 442 BRADI_1g53295v3 9 BRADI_1g59795v3 116 BRADI_1g07683v3 2 BRADI_1g00485v3 0 BRADI_1g20270v3 66 BRADI_1g74790v3 119 BRADI_1g09890v3 0 BRADI_1g77505v3 89 BRADI_1g48960v3 0 SRR13165369 completed mapping pipeline successfully