Starting /dee2/code/volunteer_pipeline.sh SRR12682232 current disk space = 1547227918336 free memory = 1598810772 SRR12682232 SRAfilesize 30821ed8558b180f9da14fd34a7ceef7 SRR12682232.sra SRR12682232.sra file validated SRR12682232 is single end SRR12682232 is conventional basespace SRR12682232 read1 length is 35-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682232_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 35-150 %GC 51 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.5275 32.0 32.0 32.0 32.0 32.0 2 31.5615 32.0 32.0 32.0 32.0 32.0 3 31.624 32.0 32.0 32.0 32.0 32.0 4 31.63325 32.0 32.0 32.0 32.0 32.0 5 31.62475 32.0 32.0 32.0 32.0 32.0 6 34.85975 36.0 36.0 36.0 36.0 36.0 7 35.205 36.0 36.0 36.0 36.0 36.0 8 35.08925 36.0 36.0 36.0 36.0 36.0 9 34.98475 36.0 36.0 36.0 36.0 36.0 10-14 35.09565 36.0 36.0 36.0 36.0 36.0 15-19 35.031549999999996 36.0 36.0 36.0 36.0 36.0 20-24 34.9249 36.0 36.0 36.0 35.2 36.0 25-29 34.8004 36.0 36.0 36.0 32.8 36.0 30-34 34.762299999999996 36.0 36.0 36.0 32.0 36.0 35-39 34.76425255063765 36.0 36.0 36.0 33.6 36.0 40-44 34.65056264066017 36.0 36.0 36.0 32.0 36.0 45-49 34.49924962481241 36.0 36.0 36.0 32.0 36.0 50-54 34.50282797140377 36.0 36.0 36.0 32.0 36.0 55-59 34.307274850532295 36.0 36.0 36.0 32.0 36.0 60-64 34.18366653625029 36.0 36.0 36.0 32.0 36.0 65-69 34.08852317712649 36.0 36.0 36.0 32.0 36.0 70-74 34.100795147001165 36.0 36.0 36.0 32.0 36.0 75-79 33.93107160500382 36.0 36.0 36.0 30.0 36.0 80-84 33.900400748592105 36.0 36.0 36.0 30.0 36.0 85-89 33.8404680788765 36.0 36.0 36.0 27.0 36.0 90-94 33.86108496152994 36.0 36.0 36.0 30.0 36.0 95-99 33.744023205782334 36.0 36.0 36.0 27.0 36.0 100-104 33.6339660671501 36.0 36.0 36.0 27.0 36.0 105-109 33.289956358521145 36.0 32.8 36.0 27.0 36.0 110-114 33.27112111689787 36.0 32.0 36.0 27.0 36.0 115-119 32.894588589552725 36.0 32.0 36.0 27.0 36.0 120-124 32.24765102863513 34.4 32.0 36.0 24.6 36.0 125-129 32.11334488439498 34.4 32.0 36.0 23.4 36.0 130-134 31.67518062301828 32.8 32.0 36.0 21.0 36.0 135-139 31.508305921161224 32.8 32.0 36.0 21.0 36.0 140-144 31.661095278031087 34.4 32.0 36.0 21.0 36.0 145-149 31.47364694564852 32.0 32.0 36.0 21.0 36.0 150 26.13818424566088 27.0 14.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 18 3.0 19 1.0 20 2.0 21 7.0 22 12.0 23 14.0 24 19.0 25 37.0 26 51.0 27 64.0 28 79.0 29 110.0 30 141.0 31 150.0 32 198.0 33 337.0 34 925.0 35 1850.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 28.249999999999996 8.799999999999999 7.675 55.275 2 20.25 14.149999999999999 33.35 32.25 3 21.224999999999998 15.174999999999999 20.9 42.699999999999996 4 28.299999999999997 23.599999999999998 17.974999999999998 30.125 5 26.75 28.725 20.95 23.575 6 23.069156991418478 30.691569914184758 23.54871277132761 22.690560323069157 7 17.525 21.4 39.775 21.3 8 19.55 18.224999999999998 32.525 29.7 9 20.599999999999998 20.025000000000002 31.95 27.425 10-14 22.39 25.3 24.9 27.41 15-19 23.27 23.18 26.515 27.034999999999997 20-24 24.060000000000002 24.465 24.38 27.095000000000002 25-29 23.241162058102905 23.691184559227963 24.08620431021551 28.981449072453625 30-34 23.42585646411603 22.73068267066767 25.23630907726932 28.60715178794699 35-39 24.006001500375092 23.540885221305327 24.77119279819955 27.68192048012003 40-44 23.920980245061266 23.960990247561888 24.566141535383846 27.551887971993 45-49 23.876938469234616 22.81640820410205 25.302651325662833 28.0040020010005 50-54 22.989943463251112 24.22074348326412 25.321458948316405 27.46785410516836 55-59 23.771394254829346 23.47112401161045 24.401961765589032 28.355519967971176 60-64 22.88046472031649 21.70864840502779 26.626270719615402 28.78461615504031 65-69 22.044359694901647 23.90606182256122 26.09393817743878 27.955640305098356 70-74 23.645964294694494 22.770932863967815 25.27533316570279 28.3077696756349 75-79 24.08622778675283 23.78331987075929 24.666801292407108 27.463651050080774 80-84 23.62520292207792 22.84395292207792 25.19784902597403 28.33299512987013 85-89 23.13001687202822 23.28339894677642 24.82233243008334 28.76425175111202 90-94 24.555049668874172 23.096026490066226 24.487789735099337 27.861134105960268 95-99 22.670644891122276 23.560510887772192 25.382118927973202 28.38672529313233 100-104 23.63033833983644 22.764444919557434 25.26056977925063 28.344646961355497 105-109 23.166575041231447 23.83177570093458 25.442550852116547 27.559098405717425 110-114 24.707893986890852 24.006839555428897 24.120832145910516 27.164434311769735 115-119 24.02744630071599 22.589498806682577 25.69212410501193 27.690930787589497 120-124 23.83286207979893 23.744894753377316 24.838202953188816 27.584040213634935 125-129 24.004255602101203 24.117295032914424 22.84061440255336 29.037834962431013 130-134 23.926597704406973 22.50956497095083 24.6138585801332 28.949978744508996 135-139 24.840133982947624 22.404080389768573 24.238733252131546 28.517052375152254 140-144 24.030880420499344 23.69415243101183 23.365637319316686 28.909329829172144 145-149 24.927614911328266 22.484618168657256 23.036554469779226 29.551212450235255 150 26.034712950600802 0.0 33.91188251001335 40.053404539385845 >>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 0.0 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 0.0 18 0.0 19 0.0 20 0.0 21 0.0 22 0.0 23 0.5 24 1.0 25 1.5 26 1.0 27 0.0 28 0.0 29 0.5 30 3.5 31 5.5 32 6.5 33 9.5 34 12.5 35 17.0 36 40.0 37 50.0 38 45.0 39 55.0 40 64.5 41 66.5 42 67.0 43 84.5 44 112.0 45 121.0 46 144.0 47 175.0 48 210.0 49 240.0 50 229.0 51 228.5 52 224.5 53 201.0 54 185.5 55 208.5 56 195.0 57 137.5 58 113.5 59 100.5 60 85.0 61 71.0 62 66.0 63 72.5 64 63.5 65 51.0 66 42.0 67 38.5 68 36.0 69 22.5 70 23.5 71 23.0 72 16.5 73 13.0 74 11.0 75 12.0 76 11.5 77 6.0 78 5.5 79 3.5 80 0.5 81 1.0 82 1.5 83 0.5 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 0.0 3 0.0 4 0.0 5 0.0 6 0.95 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.005 30-34 0.025 35-39 0.005001000200040008 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 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 35-39 1.0 40-44 1.0 45-49 0.0 50-54 1.0 55-59 1.0 60-64 8.0 65-69 7.0 70-74 12.0 75-79 21.0 80-84 19.0 85-89 44.0 90-94 41.0 95-99 69.0 100-104 91.0 105-109 118.0 110-114 149.0 115-119 155.0 120-124 187.0 125-129 177.0 130-134 185.0 135-139 195.0 140-144 198.0 145-149 822.0 150-151 1498.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 71.675 #Duplication Level Percentage of deduplicated Percentage of total 1 84.19951168468782 60.35 2 7.847924659923265 11.25 3 3.069410533658877 6.6000000000000005 4 1.8137425880711544 5.2 5 1.0812696198116498 3.875 6 0.4534356470177886 1.95 7 0.6278339727938612 3.15 8 0.2790373212417161 1.6 9 0.10463899546564352 0.675 >10 0.5231949773282176 5.35 >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 CCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAATA 34 0.8500000000000001 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 19 0.475 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 17 0.42500000000000004 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 15 0.375 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 15 0.375 No Hit CCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGA 14 0.35000000000000003 No Hit CCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGCCTACATTGTTCCA 13 0.325 No Hit CTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACTCC 13 0.325 No Hit CTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGCACGT 11 0.27499999999999997 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 11 0.27499999999999997 No Hit CTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTG 11 0.27499999999999997 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 11 0.27499999999999997 No Hit CTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAGG 10 0.25 No Hit GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 10 0.25 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 10 0.25 No Hit CAACAACTTAAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGC 9 0.22499999999999998 No Hit CAGAAATTTGAATGATGCGTCGCCGGCACGAGGGCCGTGCGATCCGTCGA 9 0.22499999999999998 No Hit GCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGC 9 0.22499999999999998 No Hit GCCCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTA 8 0.2 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 8 0.2 No Hit CAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGC 8 0.2 No Hit CCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTAT 8 0.2 No Hit CTGGTCGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTC 8 0.2 No Hit GTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCT 8 0.2 No Hit CTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTATA 8 0.2 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 8 0.2 No Hit CTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACAC 7 0.17500000000000002 No Hit CAGAGCGATGGCTTGCTTTGAGCACTCTAATTTCTTCAAAGTAACGATGC 7 0.17500000000000002 No Hit CCCGCGTCAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGT 7 0.17500000000000002 No Hit CCCCCATCCGCTTCCCTCCCGGCAATTTCAAGCACTCTTTGACTCTCTTT 7 0.17500000000000002 No Hit CGGCAATTTCAAGCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTT 7 0.17500000000000002 No Hit CTCGTAATGGGCTCCAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCT 7 0.17500000000000002 No Hit GGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC 7 0.17500000000000002 No Hit CTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCATC 7 0.17500000000000002 No Hit CTCATTCCAATTACCAGACACTAATGTGCCCGGTATTGTTATTTATTGTC 7 0.17500000000000002 No Hit CATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCTTTTATCTAAT 7 0.17500000000000002 No Hit CTCTAATCATTGGCTTTACCTGATAGAACTCGTAATGGGCTCCAGCTATC 7 0.17500000000000002 No Hit CCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCT 7 0.17500000000000002 No Hit CCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCT 7 0.17500000000000002 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 7 0.17500000000000002 No Hit CTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGG 7 0.17500000000000002 No Hit CAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATAAGCAACAT 7 0.17500000000000002 No Hit CTCCAATGGATCCTCGTTAAGGGATTTAGATTGTACTCATTCCAATTACC 7 0.17500000000000002 No Hit CCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAA 7 0.17500000000000002 No Hit ATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGCTCAGGC 6 0.15 No Hit CCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGC 6 0.15 No Hit CCCGGCTTCCGGTTCATCCCGCATCGCCAGTTCTGCTTACCAAAAATGGC 6 0.15 No Hit CTGTATTTAGCCTTGGACGGAGTCTACCGCCCGATTTGGGCTGCATTCCC 6 0.15 No Hit CCCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCA 6 0.15 No Hit CTCCAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCTACTAGATGGTT 6 0.15 No Hit CCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAAT 6 0.15 No Hit CCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACC 6 0.15 No Hit CCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGCA 6 0.15 No Hit CTGCTGTCTTAATCGACCAACACCCTTTGTGGGTTCTAGGTTAGCGCGCA 6 0.15 No Hit CCCGTGTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTG 6 0.15 No Hit CGCTGATTCCGCCAAGCCCGTTCCCTTGGCTGTGGTTTCGCTGGATAGTA 6 0.15 No Hit CCCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAAT 6 0.15 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 5 0.125 No Hit GCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCCCC 5 0.125 No Hit ATCTGATCGTCTTCGAGCCCCCAACTTTCGTTCTTGATTAATGAAAACAT 5 0.125 No Hit GCAGAAATTTGAATGATGCGTCGCCGGCACGAGGGCCGTGCGATCCGTCG 5 0.125 No Hit CTGAGGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTT 5 0.125 No Hit GTTCGATTAGTCTTTCGCCCCTATACCCAAGTCAGACGAACGATTTGCAC 5 0.125 No Hit CTTGGCAAATGCTTTCGCAGTTGTTCGTCTTTCATAAATCCAAGAATTTC 5 0.125 No Hit GTCGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAG 5 0.125 No Hit CGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGCTGGAATT 5 0.125 No Hit CTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGCAGTTGTTCGTCTT 5 0.125 No Hit CGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCC 5 0.125 No Hit CTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAG 5 0.125 No Hit GCCCACTTGGAGCTCCCGATTCCATGGCGCGGCTCACCGGAGCAGCCGCG 5 0.125 No Hit GCACGTACCATCAAACAAACTATAACTGATTTAATGAGCCATTCGCAGTT 5 0.125 No Hit CTCCAACTCGAACCCTTCACAGAAGATCAGGGTCGGCCAGCGGTGCGGCC 5 0.125 No Hit CACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTT 5 0.125 No Hit GTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGACGGAGTCTACCGC 5 0.125 No Hit CGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTAC 5 0.125 No Hit GTTTTGCCGACTTCCCTTGCCTACATTGTTCCATTGGCCAGAGGCTGTTC 5 0.125 No Hit GTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGCAGTTGTTCGT 5 0.125 No Hit GGCAGAAATCACATTGCGTCAGCATCCGCGAGGACCATCGCAATGCTTTG 5 0.125 No Hit CTGTGGTTTCGCTGGATAGTAGACAGGGACAGTGGGAATCTCGTTAATCC 5 0.125 No Hit CGGTTATCCGAGTAGCACGTACCATCAAACAAACTATAACTGATTTAATG 5 0.125 No Hit CTTGCGACCATACTCCCCCCGGAACCCAAAGACTTTGATTTCTCATAAGG 5 0.125 No Hit CGCCCCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCG 5 0.125 No Hit GTCCCGACAGGCGTGCTCCAACTCGAACCCTTCACAGAAGATCAGGGTCG 5 0.125 No Hit CGCTATTGGAGCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCC 5 0.125 No Hit TCTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTAT 5 0.125 No Hit CCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGAC 5 0.125 No Hit GTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGA 5 0.125 No Hit CCCGATGCCTCTAATCATTGGCTTTACCTGATAGAACTCGTAATGGGCTC 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #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 0.0 0.0 0.0 0.0 0.0 68-69 0.0 0.0 0.0 0.0 0.0 70-71 0.0 0.0 0.0 0.0 0.0 72-73 0.0 0.0 0.0 0.0 0.0 74-75 0.0 0.0 0.0 0.0 0.0 76-77 0.0 0.0 0.0 0.0 0.0 78-79 0.0 0.0 0.0 0.0 0.0 80-81 0.0 0.0 0.0 0.0 0.0 82-83 0.0 0.0 0.0 0.0 0.0 84-85 0.0 0.0 0.0 0.0 0.0 86-87 0.0 0.0 0.0 0.0 0.0 88-89 0.0 0.0 0.0 0.0 0.0 90-91 0.0 0.0 0.0 0.0 0.0 92-93 0.0 0.0 0.0 0.0 0.0 94-95 0.0 0.0 0.0 0.0 0.0 96-97 0.0 0.0 0.0 0.0 0.0 98-99 0.0 0.0 0.0 0.0 0.0 100-101 0.0 0.0 0.0 0.0 0.0 102-103 0.0 0.0 0.0 0.0 0.0 104-105 0.0 0.0 0.0 0.0 0.0 106-107 0.0 0.0 0.0 0.0 0.0 108-109 0.0 0.0 0.0 0.0 0.0 110-111 0.0 0.0 0.0 0.0 0.0 112-113 0.0 0.0 0.0 0.0 0.0 114-115 0.0 0.0 0.0 0.0 0.0 116-117 0.0 0.0 0.0 0.0 0.0 118-119 0.0 0.0 0.0 0.0 0.0 120-121 0.0 0.0 0.0 0.0 0.0 122-123 0.025 0.0 0.0 0.0 0.0 124-125 0.025 0.0 0.0 0.0 0.0 126-127 0.025 0.0 0.0 0.0 0.0 128-129 0.025 0.0 0.0 0.0 0.0 130-131 0.025 0.0 0.0 0.0 0.0 132-133 0.025 0.0 0.0 0.0 0.0 134-135 0.025 0.0 0.0 0.0 0.0 136-137 0.025 0.0 0.0 0.0 0.0 138 0.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra Rejected 1596676 READS because READLEN < 1 Read 1596676 spots for SRR12682232.sra Written 1596676 spots for SRR12682232.sra Rejected 1596664 READS because READLEN < 1 Read 1596664 spots for SRR12682232.sra Written 1596664 spots for SRR12682232.sra SRR ids: ['SRR12682232.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_1yhs6ie7 SRR12682232.sra spots: 31933292 blocks: [[1, 1596664], [1596665, 3193328], [3193329, 4789992], [4789993, 6386656], [6386657, 7983320], [7983321, 9579984], [9579985, 11176648], [11176649, 12773312], [12773313, 14369976], [14369977, 15966640], [15966641, 17563304], [17563305, 19159968], [19159969, 20756632], [20756633, 22353296], [22353297, 23949960], [23949961, 25546624], [25546625, 27143288], [27143289, 28739952], [28739953, 30336616], [30336617, 31933292]] SRR12682232 file size 9946969 SRR12682232 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 SRR12682232 SRR12682232_1.fastq Input file: SRR12682232_1.fastq trimmed: SRR12682232-trimmed.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- 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 -- minimum overlap length for adapter detection (-k): inf -- number of concurrent threads (-t): 20 Sat Dec 7 04:04:14 2024 >> started Sat Dec 7 04:04:33 2024 >> done (19.007s) 31933292 reads processed; of these: 0 ( 0.00%) short reads filtered out after trimming by size control 2650 ( 0.01%) empty reads filtered out after trimming by size control 31930642 (99.99%) reads available; of these: 15656 ( 0.05%) trimmed reads available after processing 31914986 (99.95%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 22 17 0.00% 23 16 0.00% 24 21 0.00% 25 33 0.00% 26 38 0.00% 27 35 0.00% 28 61 0.00% 29 71 0.00% 30 92 0.00% 31 100 0.00% 32 105 0.00% 33 119 0.00% 34 153 0.00% 35 194 0.00% 36 219 0.00% 37 291 0.00% 38 309 0.00% 39 415 0.00% 40 510 0.00% 41 589 0.00% 42 557 0.00% 43 628 0.00% 44 626 0.00% 45 697 0.00% 46 838 0.00% 47 987 0.00% 48 1292 0.00% 49 1493 0.00% 50 1753 0.01% 51 1963 0.01% 52 2027 0.01% 53 2120 0.01% 54 2142 0.01% 55 2456 0.01% 56 2689 0.01% 57 3222 0.01% 58 3944 0.01% 59 4416 0.01% 60 4810 0.02% 61 5440 0.02% 62 6208 0.02% 63 6292 0.02% 64 6842 0.02% 65 7335 0.02% 66 8293 0.03% 67 9162 0.03% 68 10137 0.03% 69 11127 0.03% 70 11877 0.04% 71 14531 0.05% 72 16227 0.05% 73 17811 0.06% 74 18910 0.06% 75 20608 0.06% 76 22451 0.07% 77 23568 0.07% 78 26150 0.08% 79 29709 0.09% 80 32811 0.10% 81 35025 0.11% 82 38803 0.12% 83 41011 0.13% 84 46012 0.14% 85 52720 0.17% 86 59431 0.19% 87 62046 0.19% 88 64403 0.20% 89 68279 0.21% 90 73771 0.23% 91 76252 0.24% 92 87816 0.28% 93 95961 0.30% 94 98204 0.31% 95 108550 0.34% 96 117207 0.37% 97 121834 0.38% 98 137204 0.43% 99 136891 0.43% 100 138466 0.43% 101 142264 0.45% 102 153564 0.48% 103 166095 0.52% 104 170999 0.54% 105 170369 0.53% 106 179637 0.56% 107 192515 0.60% 108 182552 0.57% 109 201146 0.63% 110 202965 0.64% 111 216666 0.68% 112 237438 0.74% 113 225259 0.71% 114 243544 0.76% 115 257607 0.81% 116 264413 0.83% 117 250968 0.79% 118 247730 0.78% 119 262821 0.82% 120 281894 0.88% 121 266792 0.84% 122 293939 0.92% 123 298455 0.93% 124 281898 0.88% 125 287991 0.90% 126 297436 0.93% 127 288722 0.90% 128 294388 0.92% 129 316665 0.99% 130 294098 0.92% 131 294918 0.92% 132 296786 0.93% 133 305128 0.96% 134 295363 0.93% 135 298954 0.94% 136 305707 0.96% 137 305906 0.96% 138 290071 0.91% 139 298351 0.93% 140 292369 0.92% 141 282864 0.89% 142 285846 0.90% 143 275925 0.86% 144 293621 0.92% 145 277938 0.87% 146 347891 1.09% 147 545575 1.71% 148 1200807 3.76% 149 4282886 13.41% 150 11975483 37.50% 31930642 reads passed initial QC criterion=sequence-density sequence-density=0.87 sequence-density-rank=1 fanout-score=2.74 fanout-score-rank=31 prefix-density=2.36 prefix-fanout=1.0 sequence=CTTGGATGTGGCAGCCGTTTCTC criterion=fanout-score sequence-density=0.04 sequence-density-rank=41 fanout-score=45.80 fanout-score-rank=1 prefix-density=1.74 prefix-fanout=1.0 sequence=AAGTTACGGGGCTATTTTGCCGAGTTCCTTAGAGAGAGTTGTCTCGCGCCCCTAGGTATTCTCTACCTACCCACCTGTGTCGGTTTCGGGTACAGGTACCCTTTTGT Started job on | Dec 07 04:04:55 Started mapping on | Dec 07 04:04:55 Finished on | Dec 07 04:07:00 Mapping speed, Million of reads per hour | 919.60 Number of input reads | 31930642 Average input read length | 136 UNIQUE READS: Uniquely mapped reads number | 9473162 Uniquely mapped reads % | 29.67% Average mapped length | 136.84 Number of splices: Total | 3375967 Number of splices: Annotated (sjdb) | 3173165 Number of splices: GT/AG | 3329291 Number of splices: GC/AG | 41215 Number of splices: AT/AC | 2496 Number of splices: Non-canonical | 2965 Mismatch rate per base, % | 0.24% Deletion rate per base | 0.01% Deletion average length | 1.71 Insertion rate per base | 0.00% Insertion average length | 1.13 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1758255 % of reads mapped to multiple loci | 5.51% Number of reads mapped to too many loci | 17620036 % of reads mapped to too many loci | 55.18% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 2.33% % of reads unmapped: other | 7.31% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 20699225 20699225 20699225 N_multimapping 1758255 1758255 1758255 N_noFeature 804865 9226009 881614 N_ambiguous 213903 989 44921 UnstrandedReadsAssigned:8454394 PositiveStrandReadsAssigned:246164 NegativeStrandReadsAssigned:8546627 Dataset is classified negative stranded MeadianReadLen=149 20thPercentileLength=121 echo kmer=117 SRR12682232 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=31 [quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20 [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 single-end mode [quant] will process file 1: SRR12682232-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 31,930,642 reads, 8,846,644 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,106 rounds 52973 SRR12682232.ke.tsv 35125 SRR12682232.se.tsv 88098 total ==> SRR12682232.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 1.31598e-05 2.64283e-06 PNS24247 1044 945 25.1618 4.47565 PNS24249 1928 1829 50.68 4.65768 PNS24246 1044 945 25.1618 4.47565 PNS24248 1044 945 25.1618 4.47565 PNS24244 1471 1372 112.835 13.8241 PNS24243 293 194 1 0.866453 KQK14069 1603 1504 5653.74 631.88 KQK14071 474 375 151.08 67.7209 ==> SRR12682232.se.tsv <== BRADI_1g14170v3 6211 BRADI_1g53295v3 62 BRADI_1g59795v3 187 BRADI_1g07683v3 0 BRADI_1g00485v3 3 BRADI_1g20270v3 585 BRADI_1g74790v3 217 BRADI_1g09890v3 0 BRADI_1g77505v3 81 BRADI_1g48960v3 1 SRR12682232 completed mapping pipeline successfully