Starting /dee2/code/volunteer_pipeline.sh SRR13695464 current disk space = 3049059131392 free memory = 1578282108 SRR13695464 SRAfilesize 1a4046f774b3e0476d135920a5dc67bc SRR13695464.sra SRR13695464.sra file validated SRR13695464 is paired end SRR13695464 is conventional basespace SRR13695464 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR13695464_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 44 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.5645 37.0 37.0 37.0 37.0 37.0 2 36.3805 37.0 37.0 37.0 37.0 37.0 3 36.572 37.0 37.0 37.0 37.0 37.0 4 36.6055 37.0 37.0 37.0 37.0 37.0 5 36.5465 37.0 37.0 37.0 37.0 37.0 6 36.562 37.0 37.0 37.0 37.0 37.0 7 36.4835 37.0 37.0 37.0 37.0 37.0 8 36.575 37.0 37.0 37.0 37.0 37.0 9 36.5455 37.0 37.0 37.0 37.0 37.0 10-14 36.544799999999995 37.0 37.0 37.0 37.0 37.0 15-19 36.5515 37.0 37.0 37.0 37.0 37.0 20-24 36.4949 37.0 37.0 37.0 37.0 37.0 25-29 36.459 37.0 37.0 37.0 37.0 37.0 30-34 36.445499999999996 37.0 37.0 37.0 37.0 37.0 35-39 36.3903 37.0 37.0 37.0 37.0 37.0 40-44 36.4147 37.0 37.0 37.0 37.0 37.0 45-49 36.3545 37.0 37.0 37.0 37.0 37.0 50-54 36.3903 37.0 37.0 37.0 37.0 37.0 55-59 36.3815 37.0 37.0 37.0 37.0 37.0 60-64 36.3534 37.0 37.0 37.0 37.0 37.0 65-69 36.3125 37.0 37.0 37.0 37.0 37.0 70-74 36.2892 37.0 37.0 37.0 37.0 37.0 75-79 36.218599999999995 37.0 37.0 37.0 37.0 37.0 80-84 36.2298 37.0 37.0 37.0 37.0 37.0 85-89 36.2308 37.0 37.0 37.0 37.0 37.0 90-94 36.2012 37.0 37.0 37.0 37.0 37.0 95-99 36.1423 37.0 37.0 37.0 37.0 37.0 100-104 36.1751 37.0 37.0 37.0 37.0 37.0 105-109 36.14040000000001 37.0 37.0 37.0 37.0 37.0 110-114 36.1 37.0 37.0 37.0 37.0 37.0 115-119 36.0642 37.0 37.0 37.0 37.0 37.0 120-124 36.00599999999999 37.0 37.0 37.0 37.0 37.0 125-129 35.944399999999995 37.0 37.0 37.0 37.0 37.0 130-134 36.016200000000005 37.0 37.0 37.0 37.0 37.0 135-139 35.9202 37.0 37.0 37.0 37.0 37.0 140-144 35.860099999999996 37.0 37.0 37.0 37.0 37.0 145-149 35.7117 37.0 37.0 37.0 37.0 37.0 150-151 35.6175 37.0 37.0 37.0 37.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 20 2.0 21 1.0 22 1.0 23 0.0 24 1.0 25 3.0 26 7.0 27 13.0 28 15.0 29 20.0 30 27.0 31 37.0 32 43.0 33 66.0 34 113.0 35 305.0 36 2937.0 37 409.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 40.6 12.725 7.6 39.074999999999996 2 20.01003009027081 14.092276830491473 35.05516549648947 30.842527582748247 3 18.675 16.475 27.05 37.8 4 23.599999999999998 23.5 22.25 30.65 5 23.1 30.65 24.3 21.95 6 20.525 33.4 23.974999999999998 22.1 7 14.899999999999999 28.95 39.900000000000006 16.25 8 17.8 27.3 30.9 24.0 9 16.925 25.275 34.625 23.175 10-14 19.67 29.604999999999997 27.79 22.935 15-19 20.575 27.665 27.925 23.835 20-24 19.925 28.749999999999996 28.175 23.150000000000002 25-29 20.76 27.565 27.345000000000002 24.33 30-34 19.82 28.060000000000002 28.244999999999997 23.875 35-39 20.39 27.195000000000004 27.87 24.545 40-44 20.155 28.884999999999998 27.185 23.775 45-49 21.175 28.23 27.24 23.355 50-54 20.185 28.715000000000003 27.034999999999997 24.065 55-59 20.41 28.27 27.529999999999998 23.79 60-64 20.19 28.494999999999997 27.450000000000003 23.865 65-69 20.34 27.655 28.000000000000004 24.005000000000003 70-74 21.22 28.58 26.924999999999997 23.275000000000002 75-79 20.94 27.525 27.810000000000002 23.724999999999998 80-84 20.74 27.85 27.61 23.799999999999997 85-89 20.095 28.03 28.1 23.775 90-94 21.0 27.284999999999997 27.555000000000003 24.16 95-99 20.580000000000002 28.035 27.015 24.37 100-104 21.58 27.865000000000002 26.674999999999997 23.880000000000003 105-109 20.979999999999997 28.025 26.76 24.235 110-114 21.375 28.470000000000002 26.815 23.34 115-119 20.895 28.499999999999996 26.25 24.355 120-124 20.87 27.505000000000003 27.675 23.95 125-129 20.57 27.889999999999997 27.465 24.075 130-134 20.845 28.475 26.650000000000002 24.03 135-139 20.724999999999998 28.155 26.779999999999998 24.34 140-144 21.23 27.66 26.735 24.375 145-149 21.34 27.750000000000004 27.045 23.865 150-151 21.224999999999998 27.0875 26.337500000000002 25.35 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 0.0 1 0.0 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 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.5 18 0.5 19 0.5 20 0.5 21 0.0 22 1.0 23 1.5 24 1.0 25 2.0 26 2.5 27 4.0 28 8.5 29 12.0 30 11.5 31 17.0 32 30.5 33 40.0 34 45.0 35 70.0 36 89.0 37 99.0 38 130.5 39 158.5 40 166.0 41 191.5 42 217.0 43 226.0 44 241.0 45 271.5 46 255.5 47 230.0 48 243.5 49 242.5 50 211.5 51 170.0 52 147.0 53 127.5 54 93.0 55 53.5 56 47.5 57 41.0 58 29.0 59 26.5 60 19.0 61 9.5 62 6.0 63 4.5 64 3.0 65 0.5 66 0.0 67 0.0 68 0.0 69 0.5 70 0.5 71 0.0 72 0.0 73 0.0 74 0.0 75 0.0 76 0.0 77 0.0 78 0.0 79 0.0 80 0.0 81 0.0 82 0.0 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 0.3 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 69.55 #Duplication Level Percentage of deduplicated Percentage of total 1 71.45938173975557 49.7 2 18.727534148094897 26.05 3 6.326383896477354 13.200000000000001 4 2.4442846872753416 6.800000000000001 5 0.5391804457225018 1.875 6 0.2516175413371675 1.05 7 0.2156721782890007 1.05 8 0.0 0.0 9 0.0 0.0 >10 0.03594536304816679 0.27499999999999997 >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 GTCCGGCTTCGCATCTTGTCTGTCAGCCAGTCAACCTTGCGGCGGGTGTT 11 0.27499999999999997 No Hit CTTCAGAACATCAGCGATCTCGCTAGCCGTTGCTTTTCCACTCAAATAAG 7 0.17500000000000002 No Hit ATTCGAAGATGCAGAACTTTTCCCAGGAAAGCTACCCGGTGGCTTCATCA 7 0.17500000000000002 No Hit CTCCTCAGTATCTTCACCTTGGTTCCTCTCTTGGGTCCAATAGGTGGTGG 7 0.17500000000000002 No Hit GCCATTAGCTTTTGTGAAGGAGTTTCTAAACCCGCCACATGCCCGGATGT 7 0.17500000000000002 No Hit GGGAATCATAAGAAGTACAGTCGAAGGGGTTCATTTCGTCACAAGTTCCT 7 0.17500000000000002 No Hit CCTCACCATCAGTAATACTATAAAGTTTGGCTGGAGTTGTCTCTGGGATA 7 0.17500000000000002 No Hit CATAATGTTAGTTATATGGAAGACAAGGATTTGGTGGATTGCTCTCTTCT 6 0.15 No Hit CAGATTATTTATCAGAAATTACATTATTAATCCACTCCCAATCCCACATC 6 0.15 No Hit GTCTCTCCCTTTCAGGCCCTAGTATACCATCAGGCATTAACTGATGAATG 6 0.15 No Hit CCCCCAACATGGCATATCGTCCGTTAATGATCTCACCGTAGGCTAACCAT 6 0.15 No Hit GGATTCATATTGCCTTTTCTTGCGGCGGTACCAGAAGAAGAAGGCTATGA 6 0.15 No Hit GGTAGCGCATTGGGTGGTGGCGGTGGTTGCATCAACATTTGTGGCACATG 6 0.15 No Hit GGCCTTTCTGGTACTGACTGGGAAAGCTGCGGCAGACTTGAGACCATTGA 6 0.15 No Hit CTTTTATATACATGGACAAGATTGACAGACAACGAAGGCTATATATATAT 5 0.125 No Hit GCCCAAGACAATTAAAGAGCAAGCAAAAAACTTAAGCTGAAACCAACGAT 5 0.125 No Hit CCAGGTTTCAAGTCACACAAGAAATTTGAGCAAACTCCTTTTACAATTTC 5 0.125 No Hit CGCTGCTGTAAATTGAAATTGGTAAAGGATGGATTTTCCAAGGCCATCTT 5 0.125 No Hit GAGCAGACTGCATTGTAACCAAGAAATCCTTCAACTTTGTCCCTTTGGTT 5 0.125 No Hit CCCAAGTATTTAACACGGTCTGGTCCGTACCATGGGCTCCCGGAGGGAAC 5 0.125 No Hit GTGGCATATGCCCAGGCGTTGTTGTTTACTGGGTCAGAAAGGTGGTCAGC 5 0.125 No Hit ATATAGTGTAATTCTTCATCCTTTGGAATATAGCCCTGCTGGTCAGCACT 5 0.125 No Hit GTGTGTATAACAGGTTCAGACTTAACAAGTGACACAAATTTTGTGTACAA 5 0.125 No Hit ATCAAATGAGATCCTGTAGAAAGGATTTGAGGAGGCCATGGCTAGCTAAC 5 0.125 No Hit CTGCCAAATGTAACTAGTGAAAAATTTTAACTCAACCAAGGGAAACGAAC 5 0.125 No Hit GCCCGATACTGAATAGATGCAACAACAGTGACAAATACATTATCCTTAGT 5 0.125 No Hit CCACTTATTAAAAGCTAAGACCAAATATTGCTGTTCTTGACAAGCAAGGA 5 0.125 No Hit GTCAATGAATGCTATGTTGAAGATGATAGTTAGATGAAAATTATGCCAGA 5 0.125 No Hit AGCTGCCTTCTCTTGGCATATATCACATGGAGGCAGCTTGTTGGAGAGGC 5 0.125 No Hit >>END_MODULE >>Adapter Content warn #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 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.037500000000000006 0.0 0.0 0.0 0.0 70-71 0.0875 0.0 0.0 0.0 0.0 72-73 0.1 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.175 0.0 0.0 0.0 0.0 78-79 0.175 0.0 0.0 0.0 0.0 80-81 0.175 0.0 0.0 0.0 0.0 82-83 0.2875 0.0 0.0 0.0 0.0 84-85 0.3 0.0 0.0 0.0 0.0 86-87 0.3 0.0 0.0 0.0 0.0 88-89 0.375 0.0 0.0 0.0 0.0 90-91 0.475 0.0 0.0 0.0 0.0 92-93 0.5 0.0 0.0 0.0 0.0 94-95 0.675 0.0 0.0 0.0 0.0 96-97 0.825 0.0 0.0 0.0 0.0 98-99 1.0125 0.0 0.0 0.0 0.0 100-101 1.1124999999999998 0.0 0.0 0.0 0.0 102-103 1.2999999999999998 0.0 0.0 0.0 0.0 104-105 1.6625 0.0 0.0 0.0 0.0 106-107 1.8875 0.0 0.0 0.0 0.0 108-109 2.125 0.0 0.0 0.0 0.0 110-111 2.45 0.0 0.0 0.0 0.0 112-113 2.7125000000000004 0.0 0.0 0.0 0.0 114-115 3.0875 0.0 0.0 0.0 0.0 116-117 3.45 0.0 0.0 0.0 0.0 118-119 3.8625 0.0 0.0 0.0 0.0 120-121 4.4875 0.0 0.0 0.0 0.0 122-123 5.1125 0.0 0.0 0.0 0.0 124-125 5.9375 0.0 0.0 0.0 0.0 126-127 6.5625 0.0 0.0 0.0 0.0 128-129 6.9625 0.0 0.0 0.0 0.0 130-131 7.4375 0.0 0.0 0.0 0.0 132-133 7.75 0.0 0.0 0.0 0.0 134-135 8.175 0.0 0.0 0.0 0.0 136-137 8.8375 0.0 0.0 0.0 0.0 138-139 9.525 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GCCAAAA 10 0.006830828 145.0 1 >>END_MODULE SRR13695464 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR13695464_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 44 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 36.19775 37.0 37.0 37.0 37.0 37.0 2 36.2445 37.0 37.0 37.0 37.0 37.0 3 36.209 37.0 37.0 37.0 37.0 37.0 4 36.262 37.0 37.0 37.0 37.0 37.0 5 36.2085 37.0 37.0 37.0 37.0 37.0 6 36.235 37.0 37.0 37.0 37.0 37.0 7 36.3115 37.0 37.0 37.0 37.0 37.0 8 36.339 37.0 37.0 37.0 37.0 37.0 9 36.1595 37.0 37.0 37.0 37.0 37.0 10-14 36.23440000000001 37.0 37.0 37.0 37.0 37.0 15-19 36.2356 37.0 37.0 37.0 37.0 37.0 20-24 36.2199 37.0 37.0 37.0 37.0 37.0 25-29 36.156699999999994 37.0 37.0 37.0 37.0 37.0 30-34 36.11925 37.0 37.0 37.0 37.0 37.0 35-39 36.1297 37.0 37.0 37.0 37.0 37.0 40-44 36.173950000000005 37.0 37.0 37.0 37.0 37.0 45-49 36.14375 37.0 37.0 37.0 37.0 37.0 50-54 36.11805 37.0 37.0 37.0 37.0 37.0 55-59 35.954 37.0 37.0 37.0 37.0 37.0 60-64 35.9685 37.0 37.0 37.0 37.0 37.0 65-69 35.9751 37.0 37.0 37.0 37.0 37.0 70-74 35.938100000000006 37.0 37.0 37.0 37.0 37.0 75-79 35.9784 37.0 37.0 37.0 37.0 37.0 80-84 35.95285 37.0 37.0 37.0 37.0 37.0 85-89 35.867200000000004 37.0 37.0 37.0 37.0 37.0 90-94 35.852199999999996 37.0 37.0 37.0 37.0 37.0 95-99 35.8621 37.0 37.0 37.0 37.0 37.0 100-104 35.8039 37.0 37.0 37.0 37.0 37.0 105-109 35.75475 37.0 37.0 37.0 37.0 37.0 110-114 35.817099999999996 37.0 37.0 37.0 37.0 37.0 115-119 35.7124 37.0 37.0 37.0 37.0 37.0 120-124 35.604699999999994 37.0 37.0 37.0 37.0 37.0 125-129 35.657000000000004 37.0 37.0 37.0 37.0 37.0 130-134 35.5127 37.0 37.0 37.0 37.0 37.0 135-139 35.5664 37.0 37.0 37.0 37.0 37.0 140-144 35.3801 37.0 37.0 37.0 34.6 37.0 145-149 35.3527 37.0 37.0 37.0 34.6 37.0 150-151 35.112 37.0 37.0 37.0 31.0 37.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 6 1.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 1.0 13 3.0 14 6.0 15 2.0 16 0.0 17 2.0 18 4.0 19 0.0 20 2.0 21 2.0 22 7.0 23 6.0 24 6.0 25 2.0 26 4.0 27 10.0 28 12.0 29 15.0 30 25.0 31 42.0 32 49.0 33 85.0 34 206.0 35 515.0 36 2732.0 37 261.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 36.16060225846926 24.81806775407779 13.174404015056462 25.84692597239649 2 27.375 26.075 29.775000000000002 16.775000000000002 3 22.025 27.625 29.575000000000003 20.775 4 24.95 33.900000000000006 22.625 18.525 5 26.674999999999997 34.875 22.125 16.325 6 22.05 38.725 21.8 17.424999999999997 7 20.025000000000002 23.875 36.425000000000004 19.675 8 21.75 28.15 27.474999999999998 22.625 9 23.425 23.5 28.249999999999996 24.825 10-14 22.655 29.830000000000002 25.96 21.555 15-19 23.669999999999998 28.27 26.525 21.535 20-24 23.38169084542271 28.36418209104552 27.298649324662332 20.955477738869437 25-29 22.799198798197295 29.26890335503255 26.484727090635957 21.447170756134202 30-34 22.853996696531357 28.519945943240405 27.393763451624203 21.23229390860403 35-39 23.696848424212106 27.49374687343672 27.123561780890444 21.68584292146073 40-44 23.447274911165607 28.50708172764126 26.725389119663678 21.320254241529454 45-49 22.894460291247558 28.16393934844618 27.688535254966723 21.253065105339537 50-54 23.28547846530939 28.462808263718674 26.631984392976836 21.619728877995097 55-59 23.475212819228844 27.746619929894845 27.38607911867802 21.392088132198296 60-64 24.047023511755878 27.308654327163584 27.988994497248626 20.655327663831915 65-69 23.22964592918584 27.780556111222243 27.515503100620126 21.474294858971792 70-74 23.16975463194792 28.267401101652478 27.155733600400602 21.407110665999 75-79 23.538245895074088 28.07368842611133 27.237685222266723 21.150380456547857 80-84 24.171042760690174 28.592148037009252 26.316579144786196 20.920230057514377 85-89 24.103745243340676 27.708792309232926 26.787502503504907 21.39995994392149 90-94 23.52411446868121 28.216930158094854 26.92115269161497 21.337802681608967 95-99 23.846923461730864 28.18409204602301 26.813406703351678 21.155577788894448 100-104 23.39008512769154 27.781672508763144 27.756634952428644 21.071607411116673 105-109 24.170046567522906 28.11576786340193 26.79885834459967 20.91532722447549 110-114 24.722361180590298 28.919459729864933 26.65332666333167 19.704852426213108 115-119 24.053675145203286 28.745243340676947 27.007810935309433 20.193270578810335 120-124 25.608412618928394 28.5227841762644 26.35953930896345 19.509263895843766 125-129 25.505606728073687 27.788346015218263 26.81718061674009 19.88886663996796 130-134 25.325651302605213 28.06613226452906 26.8186372745491 19.789579158316634 135-139 25.731169871794872 27.779447115384613 26.161858974358974 20.32752403846154 140-144 25.767883941970986 28.59929964982491 26.23311655827914 19.39969984992496 145-149 26.70505758637957 29.033550325488232 25.508262393590385 18.753129694541812 150-151 26.23402655975946 26.8479077925332 27.09847156101228 19.819594086695062 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.5 7 0.5 8 1.0 9 1.5 10 2.0 11 3.0 12 2.0 13 1.0 14 0.5 15 0.0 16 0.5 17 1.5 18 2.5 19 1.5 20 1.5 21 1.5 22 0.5 23 2.0 24 1.5 25 0.5 26 1.5 27 2.5 28 3.0 29 5.0 30 9.0 31 18.5 32 18.5 33 16.5 34 29.0 35 36.5 36 62.5 37 101.5 38 132.0 39 153.5 40 178.5 41 223.5 42 257.0 43 263.0 44 289.5 45 296.0 46 264.5 47 255.0 48 236.0 49 209.5 50 185.5 51 150.5 52 128.0 53 106.0 54 86.5 55 64.0 56 43.0 57 34.0 58 26.5 59 31.0 60 25.5 61 14.5 62 7.5 63 2.0 64 0.0 65 0.0 66 1.0 67 1.0 68 0.0 69 0.0 70 1.0 71 1.0 72 0.0 73 0.0 74 0.0 75 0.0 76 0.0 77 1.0 78 1.0 79 0.0 80 0.0 81 0.0 82 0.0 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 0.5 98 0.5 99 0.0 100 0.5 >>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 0.05 25-29 0.15 30-34 0.105 35-39 0.05 40-44 0.095 45-49 0.08499999999999999 50-54 0.045 55-59 0.15 60-64 0.05 65-69 0.02 70-74 0.15 75-79 0.12 80-84 0.025 85-89 0.13999999999999999 90-94 0.06 95-99 0.05 100-104 0.15 105-109 0.145 110-114 0.05 115-119 0.13999999999999999 120-124 0.15 125-129 0.12 130-134 0.2 135-139 0.16 140-144 0.05 145-149 0.15 150-151 0.22499999999999998 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 70.075 #Duplication Level Percentage of deduplicated Percentage of total 1 72.31537638244738 50.675000000000004 2 18.159115233678204 25.45 3 6.0649304316803425 12.75 4 2.3189439885836602 6.5 5 0.6421691045308598 2.25 6 0.21405636817695325 0.8999999999999999 7 0.2497324295397788 1.225 8 0.0 0.0 9 0.0 0.0 >10 0.03567606136282554 0.25 >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 TGCCATCTAAAGTTCAAGTTGGTGTGTTCTCCGCTACTATGCCACCTGAA 10 0.25 No Hit CAACTATACAAAAAAGAAGATGACAGAAAACAAAGTCGACAAGTTCGTCT 7 0.17500000000000002 No Hit ATAATATTGAAAGATGTGGTGACAAAGGGTTCTGAAGACTTGCTAAGAAC 7 0.17500000000000002 No Hit GGGAGCACTGCATAGCTTATAAGCTTGTAAGAGATGGCTTCCTCCTCTAT 7 0.17500000000000002 No Hit CTTTGGAAGTGATTCAGTTTTTGAAAGAAAAGTATCATGAAGGAACATGC 7 0.17500000000000002 No Hit CAACTGTTGCAACCAATACAAACTCAACTTCTAAGCCCACCATGTTGTTT 7 0.17500000000000002 No Hit CCATAGTTGCCATACAAGCCATGATTGCTATAAAGAGGAGGATTTTTCTT 7 0.17500000000000002 No Hit GACAGATTGGAAGATGGATCGCTTTCGTTGCTCTTATATTGCGTCTTTTC 7 0.17500000000000002 No Hit ATGCCATATCCCCATTGATATCATTAGGATAAGTGAAAATGCCAGTGGAA 6 0.15 No Hit CTGAGCTTGAGTGCATTCTTCTAAGTAAAAGAAATCCCTTAATTTCATCA 6 0.15 No Hit AGAGAACACATTCATACTCCAAGTCTTTTAGTTCATCCATTTAAGCTTAA 6 0.15 No Hit CCAGTGTGTCAAGAAGGGAAGCAGCTACACTGCTGGCATCGTCGAGACCG 6 0.15 No Hit GCCCCGCCTCTCCCTGCGTTATCATTTTCACCACAAAGGGATAAAATACT 6 0.15 No Hit TGCTATGGTCGCACCTGTGCCTCCACGTCCCTTTGCAAATGGTGTTGTAG 6 0.15 No Hit TGTTACTGGTGATAGAGGACTTTGTGGGGGTTTTAATAATTATTTAATCA 5 0.125 No Hit AAAATAAATGGCGCAGCCAAGTTGAAGCAAAGTGTGTCTTGAATCTGCTT 5 0.125 No Hit CTCAAAAAAAATCTTAACTGCACCCGCTCATCCAGCAATGGCAGCAGCAA 5 0.125 No Hit GCCGTAGGTGCAAGAGTCGTGTTGGAATTCACCAGAGAGTTACAAAGGAC 5 0.125 No Hit CTTGATGAGGTTTCCTCTCTCTCATAGCTAACTCGTAATCTTTGGAAAAA 5 0.125 No Hit GCTCCTGATCTGAGAGGCTATGGTGACTCTGACTCTCCTCTCAGCCCCAA 5 0.125 No Hit GCAAAGCTCTTCACTACTTTGCAGCTTGAAGGAACGTGTTGACTTTGCAA 5 0.125 No Hit GAGTTCCTGGCTGCTAGGAAAACTATAAGTGGAGAGCAACATGGTGAAGT 5 0.125 No Hit AAACGTCGCCGCATGGCTCCAACCAAGCAGTTTTATGGAACTATAATAAA 5 0.125 No Hit TTCACATTGCTGCAAACAAAAACACTGTTCCTGGTGATGTGTCTGCCATG 5 0.125 No Hit AACGGGAAGCCTCATAAACTAAGATTATATTCAATTGCCAGCAGTGCTAT 5 0.125 No Hit GTGCTTCTGACATTGTCCTCACTGAACCAGGACTTAGTGTTATTATAAGT 5 0.125 No Hit GATCAGTCTAATGTTGCTATTAAGGAACAGTTTGGAAAGTTTGTTGATGT 5 0.125 No Hit AAGGTGTAACCAAGTGGGGATCTGCTAAAAGAGAGGAGGAGGTTTGGTCT 5 0.125 No Hit GAATTGCTGGCGGGCCACTCGGTGAGGTAACTGACCCAATCTACCCAGGT 5 0.125 No Hit TGTTATTGCTCCTATCCACACTGGTGAAGATAATGGTAGTCTGCTTGGAG 5 0.125 No Hit TGATGATACTCCCCCAGCTAGCGGCAGTGGTGCTGGTCCCAAGATCGAAG 5 0.125 No Hit ATTTTCTCAGGTCTATATTTATGTTAACAGAGGATTACTGAGGTTGCTGG 5 0.125 No Hit >>END_MODULE >>Adapter Content warn #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 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0 0.0 0.0 0.0 0.0 64-65 0.0 0.0 0.0 0.0 0.0 66-67 0.025 0.0 0.0 0.0 0.0 68-69 0.037500000000000006 0.0 0.0 0.0 0.0 70-71 0.0875 0.0 0.0 0.0 0.0 72-73 0.1 0.0 0.0 0.0 0.0 74-75 0.175 0.0 0.0 0.0 0.0 76-77 0.175 0.0 0.0 0.0 0.0 78-79 0.175 0.0 0.0 0.0 0.0 80-81 0.175 0.0 0.0 0.0 0.0 82-83 0.2875 0.0 0.0 0.0 0.0 84-85 0.3 0.0 0.0 0.0 0.0 86-87 0.3 0.0 0.0 0.0 0.0 88-89 0.375 0.0 0.0 0.0 0.0 90-91 0.475 0.0 0.0 0.0 0.0 92-93 0.5 0.0 0.0 0.0 0.0 94-95 0.675 0.0 0.0 0.0 0.0 96-97 0.825 0.0 0.0 0.0 0.0 98-99 1.0125 0.0 0.0 0.0 0.0 100-101 1.1124999999999998 0.0 0.0 0.0 0.0 102-103 1.2999999999999998 0.0 0.0 0.0 0.0 104-105 1.6625 0.0 0.0 0.0 0.0 106-107 1.8875 0.0 0.0 0.0 0.0 108-109 2.125 0.0 0.0 0.0 0.0 110-111 2.45 0.0 0.0 0.0 0.0 112-113 2.7125000000000004 0.0 0.0 0.0 0.0 114-115 3.0875 0.0 0.0 0.0 0.0 116-117 3.4625000000000004 0.0 0.0 0.0 0.0 118-119 3.8875 0.0 0.0 0.0 0.0 120-121 4.5125 0.0 0.0 0.0 0.0 122-123 5.1625 0.0 0.0 0.0 0.0 124-125 6.0125 0.0 0.0 0.0 0.0 126-127 6.637499999999999 0.0 0.0 0.0 0.0 128-129 7.0375 0.0 0.0 0.0 0.0 130-131 7.5125 0.0 0.0 0.0 0.0 132-133 7.825 0.0 0.0 0.0 0.0 134-135 8.25 0.0 0.0 0.0 0.0 136-137 8.95 0.0 0.0 0.0 0.0 138-139 9.65 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917044 spots for SRR13695464.sra Written 917044 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra Read 917028 spots for SRR13695464.sra Written 917028 spots for SRR13695464.sra SRR ids: ['SRR13695464.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_5aij3suc SRR13695464.sra spots: 18340576 blocks: [[1, 917028], [917029, 1834056], [1834057, 2751084], [2751085, 3668112], [3668113, 4585140], [4585141, 5502168], [5502169, 6419196], [6419197, 7336224], [7336225, 8253252], [8253253, 9170280], [9170281, 10087308], [10087309, 11004336], [11004337, 11921364], [11921365, 12838392], [12838393, 13755420], [13755421, 14672448], [14672449, 15589476], [15589477, 16506504], [16506505, 17423532], [17423533, 18340576]] SRR13695464 file size 6211229 SRR13695464 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 SRR13695464 SRR13695464_1.fastq SRR13695464_2.fastq Input file: SRR13695464_1.fastq Paired file: SRR13695464_2.fastq trimmed: SRR13695464-trimmed-pair1.fastq, SRR13695464-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 Wed Feb 12 05:10:40 2025 >> started Wed Feb 12 05:10:59 2025 >> done (19.151s) 18340576 read pairs processed; of these: 111 ( 0.00%) short read pairs filtered out after trimming by size control 2255 ( 0.01%) empty read pairs filtered out after trimming by size control 18338210 (99.99%) read pairs available; of these: 2380692 (12.98%) trimmed read pairs available after processing 15957518 (87.02%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 3 0.00% 19 3 0.00% 20 0 0.00% 21 0 0.00% 22 4 0.00% 23 0 0.00% 24 2 0.00% 25 2 0.00% 26 4 0.00% 27 4 0.00% 28 1 0.00% 29 2 0.00% 30 0 0.00% 31 3 0.00% 32 5 0.00% 33 3 0.00% 34 10 0.00% 35 2 0.00% 36 11 0.00% 37 4 0.00% 38 5 0.00% 39 3 0.00% 40 12 0.00% 41 5 0.00% 42 9 0.00% 43 20 0.00% 44 16 0.00% 45 18 0.00% 46 8 0.00% 47 32 0.00% 48 30 0.00% 49 31 0.00% 50 57 0.00% 51 53 0.00% 52 65 0.00% 53 50 0.00% 54 73 0.00% 55 98 0.00% 56 82 0.00% 57 95 0.00% 58 134 0.00% 59 160 0.00% 60 202 0.00% 61 215 0.00% 62 294 0.00% 63 315 0.00% 64 365 0.00% 65 446 0.00% 66 484 0.00% 67 576 0.00% 68 649 0.00% 69 785 0.00% 70 936 0.01% 71 1185 0.01% 72 1257 0.01% 73 1512 0.01% 74 1677 0.01% 75 1884 0.01% 76 2204 0.01% 77 2327 0.01% 78 2577 0.01% 79 3038 0.02% 80 3396 0.02% 81 3858 0.02% 82 4441 0.02% 83 4876 0.03% 84 5549 0.03% 85 6320 0.03% 86 6575 0.04% 87 7296 0.04% 88 8094 0.04% 89 8397 0.05% 90 9510 0.05% 91 10097 0.06% 92 10555 0.06% 93 11635 0.06% 94 12583 0.07% 95 13640 0.07% 96 14416 0.08% 97 15573 0.08% 98 16233 0.09% 99 16881 0.09% 100 18024 0.10% 101 18651 0.10% 102 19617 0.11% 103 20825 0.11% 104 21639 0.12% 105 22750 0.12% 106 23934 0.13% 107 25027 0.14% 108 25787 0.14% 109 26714 0.15% 110 27442 0.15% 111 28485 0.16% 112 29585 0.16% 113 29980 0.16% 114 30988 0.17% 115 32936 0.18% 116 34443 0.19% 117 34920 0.19% 118 36241 0.20% 119 37234 0.20% 120 38276 0.21% 121 39248 0.21% 122 39718 0.22% 123 40865 0.22% 124 42371 0.23% 125 42756 0.23% 126 44595 0.24% 127 45864 0.25% 128 45878 0.25% 129 46899 0.26% 130 48398 0.26% 131 48736 0.27% 132 49712 0.27% 133 50137 0.27% 134 51533 0.28% 135 52393 0.29% 136 53200 0.29% 137 54275 0.30% 138 55972 0.31% 139 57100 0.31% 140 56605 0.31% 141 58454 0.32% 142 59257 0.32% 143 58684 0.32% 144 60329 0.33% 145 60735 0.33% 146 61436 0.34% 147 63226 0.34% 148 64417 0.35% 149 64439 0.35% 150 65990 0.36% 151 15957518 87.02% 18338210 reads passed initial QC criterion=sequence-density sequence-density=0.49 sequence-density-rank=1 fanout-score=2.00 fanout-score-rank=24 prefix-density=0.49 prefix-fanout=2.0 sequence=GTGTTGTCGAATCC criterion=fanout-score sequence-density=0.02 sequence-density-rank=29 fanout-score=41.11 fanout-score-rank=1 prefix-density=0.14 prefix-fanout=6.7 sequence=AATGAAGAAGACACAAAGATAAAGACACTCACGGACACTTTTGTTTGTTCACTCCACACCCACAAGTACAGAAGAACACAGATTATTTATCAGAAATTACATTATTAATCCACTCCCAATCCCACATCAAACATGATAGTTGATGTGCTTGCTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGACTACGGAGGAGACATAGTTCTTCTC criterion=sequence-density sequence-density=0.83 sequence-density-rank=1 fanout-score=2.03 fanout-score-rank=21 prefix-density=0.82 prefix-fanout=2.0 sequence=CTGCGACTGCGCTGACAAGACCCAGTGTGTCAAGAAGGGAAGCAGCTACACTGCTGGCATCGTCGAGAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=28 fanout-score=91.73 fanout-score-rank=1 prefix-density=0.25 prefix-fanout=1.9 sequence=AGGAACTCAAACGCATAGCTTCCTACAAATACCCCAGCTAGCCAATACTCTCCACCACTAAACCCAAAGCTCAAAAAAAATCTTAACTGCACCCGCTCATCCAGCAATGGCAGCAGCAACAATGGCCCTCTC SRR13695464 testing PE reads STAR mapping to Ensembl genome Started job on | Feb 12 05:11:38 Started mapping on | Feb 12 05:11:38 Finished on | Feb 12 05:13:28 Mapping speed, Million of reads per hour | 600.16 Number of input reads | 18338210 Average input read length | 295 UNIQUE READS: Uniquely mapped reads number | 17188752 Uniquely mapped reads % | 93.73% Average mapped length | 294.27 Number of splices: Total | 17025110 Number of splices: Annotated (sjdb) | 16674048 Number of splices: GT/AG | 16684094 Number of splices: GC/AG | 277790 Number of splices: AT/AC | 9870 Number of splices: Non-canonical | 53356 Mismatch rate per base, % | 0.36% Deletion rate per base | 0.03% Deletion average length | 2.91 Insertion rate per base | 0.02% Insertion average length | 2.44 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 418976 % of reads mapped to multiple loci | 2.28% Number of reads mapped to too many loci | 114083 % of reads mapped to too many loci | 0.62% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 3.21% % of reads unmapped: other | 0.16% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 730663 730663 730663 N_multimapping 418976 418976 418976 N_noFeature 504257 16839237 667920 N_ambiguous 296216 1637 109433 UnstrandedReadsAssigned:16388279 PositiveStrandReadsAssigned:347878 NegativeStrandReadsAssigned:16411399 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=151 echo kmer=147 SRR13695464 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: 52,400 [index] number of k-mers: 62,057,036 [index] number of equivalence classes: 130,681 [quant] running in paired-end mode [quant] will process pair 1: SRR13695464-trimmed-pair1.fastq SRR13695464-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 18,338,210 reads, 16,518,957 reads pseudoaligned [quant] estimated average fragment length: 241.487 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,064 rounds 52401 SRR13695464.ke.tsv 34699 SRR13695464.se.tsv 87100 total ==> SRR13695464.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1777.51 610 17.181 Potri.005G024800.1.v4.1 1035 794.513 273 17.2025 Potri.004G059700.1.v4.1 961 720.584 0 0 Potri.007G009000.2.v4.1 1416 1175.51 0 0 Potri.003G141000.2.v4.1 2943 2702.51 812.462 15.051 Potri.016G087400.1.v4.1 270 86.7954 854 492.597 Potri.015G069301.1.v4.1 564 331.018 0 0 Potri.010G195200.1.v4.1 1773 1532.51 74 2.41745 Potri.012G127500.1.v4.1 977 736.541 149 10.1279 ==> SRR13695464.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 128 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 285 Potri.001G212900.v4.1 4 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 12 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 8 SRR13695464 completed mapping pipeline successfully