Starting /dee2/code/volunteer_pipeline.sh SRR12682221 current disk space = 1547668529152 free memory = 1601966356 SRR12682221 SRAfilesize be60007dbe97bda14696009bb7df6ec1 SRR12682221.sra SRR12682221.sra file validated SRR12682221 is single end SRR12682221 is conventional basespace SRR12682221 read1 length is 50-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682221_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 50-150 %GC 52 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.5775 32.0 32.0 32.0 32.0 32.0 2 31.525 32.0 32.0 32.0 32.0 32.0 3 31.60075 32.0 32.0 32.0 32.0 32.0 4 31.617 32.0 32.0 32.0 32.0 32.0 5 31.484 32.0 32.0 32.0 32.0 32.0 6 34.8045 36.0 36.0 36.0 36.0 36.0 7 35.255 36.0 36.0 36.0 36.0 36.0 8 35.1885 36.0 36.0 36.0 36.0 36.0 9 35.0715 36.0 36.0 36.0 36.0 36.0 10-14 35.0865 36.0 36.0 36.0 36.0 36.0 15-19 35.03075 36.0 36.0 36.0 36.0 36.0 20-24 34.9403 36.0 36.0 36.0 36.0 36.0 25-29 34.8266 36.0 36.0 36.0 32.8 36.0 30-34 34.7797 36.0 36.0 36.0 32.0 36.0 35-39 34.72775 36.0 36.0 36.0 32.0 36.0 40-44 34.6134 36.0 36.0 36.0 32.0 36.0 45-49 34.4995 36.0 36.0 36.0 32.0 36.0 50-54 34.41527989497374 36.0 36.0 36.0 32.0 36.0 55-59 34.32754425474803 36.0 36.0 36.0 32.0 36.0 60-64 34.15422711355678 36.0 36.0 36.0 32.0 36.0 65-69 33.9788902707546 36.0 36.0 36.0 32.0 36.0 70-74 34.059126327860895 36.0 36.0 36.0 32.0 36.0 75-79 33.952602556906854 36.0 36.0 36.0 32.0 36.0 80-84 33.84182031441644 36.0 36.0 36.0 29.0 36.0 85-89 33.7927260595297 36.0 36.0 36.0 28.0 36.0 90-94 33.80944758740061 36.0 36.0 36.0 28.0 36.0 95-99 33.67307155894448 36.0 36.0 36.0 27.0 36.0 100-104 33.58930697070532 36.0 36.0 36.0 27.0 36.0 105-109 33.31196370919753 36.0 32.8 36.0 27.0 36.0 110-114 33.185653834568285 36.0 32.8 36.0 27.0 36.0 115-119 32.810812422479124 36.0 32.0 36.0 27.0 36.0 120-124 32.19501982527548 34.4 32.0 36.0 24.6 36.0 125-129 32.02788156473723 34.4 32.0 36.0 23.4 36.0 130-134 31.69683998923922 32.0 32.0 36.0 22.2 36.0 135-139 31.647774248428696 32.0 32.0 36.0 22.2 36.0 140-144 31.714419327919973 35.2 32.0 36.0 21.0 36.0 145-149 31.59728568772838 32.0 32.0 36.0 21.0 36.0 150 26.00397088021178 27.0 14.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 17 1.0 18 1.0 19 1.0 20 5.0 21 4.0 22 6.0 23 10.0 24 24.0 25 38.0 26 56.0 27 67.0 28 82.0 29 106.0 30 134.0 31 179.0 32 193.0 33 371.0 34 911.0 35 1811.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 30.625000000000004 9.625 6.7 53.05 2 21.099999999999998 12.575 31.900000000000002 34.425 3 20.974999999999998 13.575000000000001 20.925 44.525 4 27.525 21.0 18.6 32.875 5 26.575 26.55 22.625 24.25 6 23.682219419924337 29.482976040353087 24.691046658259776 22.1437578814628 7 18.025 22.85 37.375 21.75 8 19.725 18.95 32.65 28.675 9 20.525 19.5 33.324999999999996 26.650000000000002 10-14 23.035 24.79 24.795 27.38 15-19 22.845 23.715 25.645 27.794999999999998 20-24 23.735 24.135 24.765 27.365000000000002 25-29 23.625 23.549999999999997 23.919999999999998 28.904999999999998 30-34 23.72 22.645 24.55 29.085 35-39 24.505 23.23 24.685000000000002 27.58 40-44 24.49244924492449 23.17731773177318 24.282428242824285 28.047804780478046 45-49 23.652365236523654 23.292329232923294 24.98249824982498 28.072807280728075 50-54 23.215803950987745 24.0960240060015 25.046261565391347 27.6419104776194 55-59 23.86932159295577 23.6291775065039 24.30958575145087 28.191915149089454 60-64 22.700890623436408 22.555789052336635 26.003202241569102 28.74011808265786 65-69 22.81711283462597 22.997247935951965 25.999499624718535 28.186139604703524 70-74 23.961933383420984 22.54946155772602 25.018782870022537 28.469822188830452 75-79 24.31726907630522 24.036144578313255 23.84036144578313 27.80622489959839 80-84 24.180802335531283 22.323450948809583 24.26133789701515 29.23440881864398 85-89 23.944731248102038 22.43142018422917 24.881060836117015 28.74278773155178 90-94 24.427598217487066 22.17384623264867 24.82712697843569 28.57142857142857 95-99 22.835137385512073 23.574104912572853 25.093671940049962 28.497085761865108 100-104 23.477432668395153 23.61500608497804 24.94840996878142 27.95915127784539 105-109 23.89274858879722 23.008033000434217 25.439643942683453 27.659574468085108 110-114 24.470892045135574 24.08914837478246 24.35861449503172 27.081345085050245 115-119 24.577872239933875 23.20226709174637 24.873066477742352 27.346794190577402 120-124 24.173233231991066 23.273562077309673 24.607557237699325 27.94564745299994 125-129 24.145425805176842 24.00052690509122 22.880853586247778 28.973193703484164 130-134 24.904808912706248 21.936257227471444 24.383020730503453 28.77591312931885 135-139 24.79981870373168 22.83577579694818 24.203051820516695 28.161353678803447 140-144 24.389849684823016 22.57152093098432 24.106998545336996 28.931630838855664 145-149 26.267857142857142 21.910714285714285 23.3125 28.50892857142857 150 27.332892124420916 0.0 33.55393778954335 39.11317008603574 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 1.0 1 0.5 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 0.5 15 0.5 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 0.5 25 0.5 26 0.0 27 0.5 28 1.5 29 2.0 30 2.0 31 2.5 32 3.5 33 5.0 34 7.0 35 11.5 36 34.0 37 45.0 38 42.5 39 54.5 40 65.5 41 72.5 42 80.0 43 90.5 44 107.5 45 122.0 46 143.5 47 173.0 48 192.0 49 213.5 50 222.0 51 229.0 52 218.5 53 204.0 54 180.0 55 167.5 56 170.5 57 142.0 58 126.0 59 115.0 60 99.0 61 79.5 62 75.0 63 77.5 64 65.5 65 52.5 66 49.5 67 48.0 68 40.0 69 34.0 70 28.5 71 25.0 72 24.5 73 20.5 74 13.0 75 13.5 76 12.5 77 7.5 78 6.5 79 2.0 80 0.5 81 1.0 82 0.5 83 0.0 84 0.5 85 0.5 86 0.5 87 0.5 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 0.5 100 1.0 >>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 0.8750000000000001 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 0.01 45-49 0.01 50-54 0.005001000200040008 55-59 0.015006753038867492 60-64 0.020010005002501254 65-69 0.020011006053329332 70-74 0.02003104812459312 75-79 0.010039152695512499 80-84 0.01509813789632612 85-89 0.01518141794443601 90-94 0.020484457417934143 95-99 0.026013214713074242 100-104 0.02116066232873089 105-109 0.021706099413935316 110-114 0.011226494527083918 115-119 0.023609963404556723 120-124 0.006204243702692642 125-129 0.02633831566471324 130-134 0.007050694493407601 135-139 0.007553440592189742 140-144 0.00808080808080808 145-149 0.026778541462108365 150 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 50-54 1.0 55-59 1.0 60-64 0.0 65-69 1.0 70-74 8.0 75-79 10.0 80-84 14.0 85-89 37.0 90-94 57.0 95-99 67.0 100-104 78.0 105-109 105.0 110-114 155.0 115-119 172.0 120-124 181.0 125-129 198.0 130-134 197.0 135-139 162.0 140-144 198.0 145-149 847.0 150-151 1511.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 74.02499999999999 #Duplication Level Percentage of deduplicated Percentage of total 1 85.0726106045255 62.975 2 7.1259709557581905 10.549999999999999 3 3.242147922998987 7.199999999999999 4 1.9250253292806485 5.7 5 0.7767646065518407 2.875 6 0.5403579871664979 2.4 7 0.5403579871664979 2.8000000000000003 8 0.2364066193853428 1.4000000000000001 9 0.33772374197906113 2.25 >10 0.2026342451874367 1.8499999999999999 >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 17 0.42500000000000004 No Hit CTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGCACGT 12 0.3 No Hit CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 12 0.3 No Hit CCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCT 12 0.3 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 11 0.27499999999999997 No Hit CTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATT 10 0.25 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 9 0.22499999999999998 No Hit CCCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTA 9 0.22499999999999998 No Hit CCCATGCTAATGTATCCAGAGCGATGGCTTGCTTTGAGCACTCTAATTTC 9 0.22499999999999998 No Hit GCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGC 9 0.22499999999999998 No Hit CTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTC 9 0.22499999999999998 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 9 0.22499999999999998 No Hit CCTCTAAGAAGCTAGCTGCGGAGGGATGGCTCCGCATAGCTAGTTAGCAG 9 0.22499999999999998 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 9 0.22499999999999998 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 9 0.22499999999999998 No Hit CCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGAC 9 0.22499999999999998 No Hit CCCGAAGTTACGGATCCGTTTTGCCGACTTCCCTTGCCTACATTGTTCCA 8 0.2 No Hit GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 8 0.2 No Hit CTGTATTTAGCCTTGGACGGAGTCTACCGCCCGATTTGGGCTGCATTCCC 8 0.2 No Hit GTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCT 8 0.2 No Hit CCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGA 8 0.2 No Hit GCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCCAATGGATCCT 8 0.2 No Hit CTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGTTTTGCCGACTTCC 8 0.2 No Hit CCCGCGTCAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGT 7 0.17500000000000002 No Hit GAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGCTGGAATTA 7 0.17500000000000002 No Hit ATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGCTCAGGC 7 0.17500000000000002 No Hit GTCACTACCTCCCCGTGTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTT 7 0.17500000000000002 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 7 0.17500000000000002 No Hit CCCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCG 7 0.17500000000000002 No Hit CCGCTGATTCCGCCAAGCCCGTTCCCTTGGCTGTGGTTTCGCTGGATAGT 7 0.17500000000000002 No Hit GTCGGGGCAGGCGGCGGGCGCAGGCGCCGCTTGCTAGCTTGGATTCTGAC 7 0.17500000000000002 No Hit CTCGTAATGGGCTCCAGCTATCCTGAGGGAAACTTCGGAGGGAACCAGCT 7 0.17500000000000002 No Hit GTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCC 7 0.17500000000000002 No Hit CCCGAGCCCAGTCCTCAGAGCCAATCCTTTTCCCGAAGTTACGGATCCGT 7 0.17500000000000002 No Hit CCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTAAT 7 0.17500000000000002 No Hit CGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCAT 7 0.17500000000000002 No Hit CCCGTGTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTG 7 0.17500000000000002 No Hit CCTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGG 7 0.17500000000000002 No Hit CCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAA 7 0.17500000000000002 No Hit CCCTTGTCCGTACCAGTTCTGAGTCGACTGTTCAGCGCTCGGGGAAAGCC 6 0.15 No Hit GTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCA 6 0.15 No Hit GTCAGTATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCGC 6 0.15 No Hit CCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAAT 6 0.15 No Hit CTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTG 6 0.15 No Hit CAGAAATTTGAATGATGCGTCGCCGGCACGAGGGCCGTGCGATCCGTCGA 6 0.15 No Hit CATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCTTTTATCTAAT 6 0.15 No Hit CGTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCC 6 0.15 No Hit CTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTATA 6 0.15 No Hit GCCCGGTCCGTCGCTGAGGACGCCTCTCCAGACTACAATTCGGACGGCAC 6 0.15 No Hit CGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCC 6 0.15 No Hit CTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGG 6 0.15 No Hit CTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATT 6 0.15 No Hit CATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACC 6 0.15 No Hit GTCCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGA 6 0.15 No Hit CCCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAAT 6 0.15 No Hit CCCGATTCCATGGCGCGGCTCACCGGAGCAGCCGCGCCGTCCTACCTATT 5 0.125 No Hit GCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTTTCCCTCGCGGTA 5 0.125 No Hit CCCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCA 5 0.125 No Hit CTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCAAAGACTTT 5 0.125 No Hit ACTCATTCCAATTACCAGACACTAATGTGCCCGGTATTGTTATTTATTGT 5 0.125 No Hit GTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCT 5 0.125 No Hit GGTAGCTTCGCGCCACTGGCTTTTCAACCAAGCGCGATGACCAATTGTGT 5 0.125 No Hit CTCCCACTTATCCTACACCTCTCAAGTCATTTCACAAAGTCGGACTAGAG 5 0.125 No Hit CGGCAATTTCAAGCACTCTTTGACTCTCTTTTCAAAGTCCTTTTCATCTT 5 0.125 No Hit CAACAACTTAAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGC 5 0.125 No Hit CACTTATCCTACACCTCTCAAGTCATTTCACAAAGTCGGACTAGAGTCAA 5 0.125 No Hit GGGAAACTTCGGAGGGAACCAGCTACTAGATGGTTCGATTAGTCTTTCGC 5 0.125 No Hit CTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAG 5 0.125 No Hit GTGCGGTGCTCTTCCGGCCACTGGACCCTACCTCCGGCTGAACCGATTCC 5 0.125 No Hit CTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCATC 5 0.125 No Hit GCCCTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCC 5 0.125 No Hit GCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCC 5 0.125 No Hit CCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTA 5 0.125 No Hit GTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCCCCCAACTTTCGTTC 5 0.125 No Hit GTCATCAGTAGGGTAAAACTAACCTGTCTCACGACGGTCTAAACCCAGCT 5 0.125 No Hit CGTCAGTATCGCTTCGAGCCTCCACCAGAGTTTCCTCTGGCTTCGCCCCG 5 0.125 No Hit CGCCCCTATACCCAAGTCAGACGAACGATTTGCACGTCAGTATCGCTTCG 5 0.125 No Hit CCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTTC 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 0.0 0.0 0.0 0.0 0.0 124-125 0.0 0.0 0.0 0.0 0.0 126-127 0.0 0.0 0.0 0.0 0.0 128-129 0.0 0.0 0.0 0.0 0.0 130-131 0.0 0.0 0.0 0.0 0.0 132-133 0.0 0.0 0.0 0.0 0.0 134-135 0.0 0.0 0.0 0.0 0.0 136-137 0.0 0.0 0.0 0.0 0.0 138 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CCGCAGG 10 0.00899697 132.2375 1 TCCACGC 10 0.00899697 132.2375 9 >>END_MODULE Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400539 READS because READLEN < 1 Read 1400539 spots for SRR12682221.sra Written 1400539 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra Rejected 1400525 READS because READLEN < 1 Read 1400525 spots for SRR12682221.sra Written 1400525 spots for SRR12682221.sra SRR ids: ['SRR12682221.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_g4_o380j SRR12682221.sra spots: 28010514 blocks: [[1, 1400525], [1400526, 2801050], [2801051, 4201575], [4201576, 5602100], [5602101, 7002625], [7002626, 8403150], [8403151, 9803675], [9803676, 11204200], [11204201, 12604725], [12604726, 14005250], [14005251, 15405775], [15405776, 16806300], [16806301, 18206825], [18206826, 19607350], [19607351, 21007875], [21007876, 22408400], [22408401, 23808925], [23808926, 25209450], [25209451, 26609975], [26609976, 28010514]] SRR12682221 file size 8738462 SRR12682221 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 SRR12682221 SRR12682221_1.fastq Input file: SRR12682221_1.fastq trimmed: SRR12682221-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 03:13:39 2024 >> started Sat Dec 7 03:13:55 2024 >> done (15.824s) 28010514 reads processed; of these: 0 ( 0.00%) short reads filtered out after trimming by size control 2123 ( 0.01%) empty reads filtered out after trimming by size control 28008391 (99.99%) reads available; of these: 13770 ( 0.05%) trimmed reads available after processing 27994621 (99.95%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 20 1 0.00% 21 1 0.00% 22 8 0.00% 23 20 0.00% 24 18 0.00% 25 25 0.00% 26 33 0.00% 27 41 0.00% 28 62 0.00% 29 81 0.00% 30 71 0.00% 31 90 0.00% 32 110 0.00% 33 109 0.00% 34 113 0.00% 35 155 0.00% 36 176 0.00% 37 189 0.00% 38 244 0.00% 39 303 0.00% 40 398 0.00% 41 443 0.00% 42 428 0.00% 43 450 0.00% 44 445 0.00% 45 470 0.00% 46 568 0.00% 47 713 0.00% 48 888 0.00% 49 1056 0.00% 50 1240 0.00% 51 1323 0.00% 52 1530 0.01% 53 1553 0.01% 54 1559 0.01% 55 1741 0.01% 56 1905 0.01% 57 2244 0.01% 58 2659 0.01% 59 3081 0.01% 60 3483 0.01% 61 3875 0.01% 62 4295 0.02% 63 4381 0.02% 64 4890 0.02% 65 5139 0.02% 66 5835 0.02% 67 6403 0.02% 68 6781 0.02% 69 7534 0.03% 70 8213 0.03% 71 9463 0.03% 72 11030 0.04% 73 12289 0.04% 74 12912 0.05% 75 14279 0.05% 76 15554 0.06% 77 16794 0.06% 78 18442 0.07% 79 20792 0.07% 80 22735 0.08% 81 24719 0.09% 82 28017 0.10% 83 28988 0.10% 84 32576 0.12% 85 37543 0.13% 86 42348 0.15% 87 45849 0.16% 88 49207 0.18% 89 51515 0.18% 90 56951 0.20% 91 59285 0.21% 92 67410 0.24% 93 74732 0.27% 94 77308 0.28% 95 86702 0.31% 96 95140 0.34% 97 99603 0.36% 98 114370 0.41% 99 116183 0.41% 100 118820 0.42% 101 122076 0.44% 102 132908 0.47% 103 142118 0.51% 104 150651 0.54% 105 149782 0.53% 106 158593 0.57% 107 171528 0.61% 108 162473 0.58% 109 180002 0.64% 110 179686 0.64% 111 190642 0.68% 112 209583 0.75% 113 202610 0.72% 114 217492 0.78% 115 235417 0.84% 116 237492 0.85% 117 229947 0.82% 118 227849 0.81% 119 237863 0.85% 120 254468 0.91% 121 240625 0.86% 122 264533 0.94% 123 274164 0.98% 124 259828 0.93% 125 260348 0.93% 126 267193 0.95% 127 261294 0.93% 128 265535 0.95% 129 284435 1.02% 130 268042 0.96% 131 267972 0.96% 132 272957 0.97% 133 276282 0.99% 134 264291 0.94% 135 270613 0.97% 136 274905 0.98% 137 278450 0.99% 138 265071 0.95% 139 269428 0.96% 140 265126 0.95% 141 257369 0.92% 142 257046 0.92% 143 251461 0.90% 144 261159 0.93% 145 251140 0.90% 146 306334 1.09% 147 488150 1.74% 148 1068980 3.82% 149 3693524 13.19% 150 10480027 37.42% 28008391 reads passed initial QC criterion=sequence-density sequence-density=1.31 sequence-density-rank=1 fanout-score=2.83 fanout-score-rank=30 prefix-density=1.32 prefix-fanout=2.8 sequence=CCCAGCTCACGTTCCCTATTGGTGGGTGAACAATCCAACACTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAGCCAGTTATCCCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCCAAACTCCCCACCTGACAATGTCTTCCGCCCGGATCGGCCCGGTCAGACCGGGCCTTGGAGCCAAAAGGAGGGGACTTGCCCCGCTTCCGACCCACGGAATAAGTAAAATAACGTTAAAAGTAGTGGTATTTCACTTGCGCCCGTAAAGGCTCCCACTTATCCTACACCTCTC criterion=fanout-score sequence-density=0.05 sequence-density-rank=32 fanout-score=40.54 fanout-score-rank=1 prefix-density=2.03 prefix-fanout=1.0 sequence=TGGGTAATTTGTGCGCCTGCTGC Started job on | Dec 07 03:14:17 Started mapping on | Dec 07 03:14:18 Finished on | Dec 07 03:15:45 Mapping speed, Million of reads per hour | 1158.97 Number of input reads | 28008391 Average input read length | 137 UNIQUE READS: Uniquely mapped reads number | 8931279 Uniquely mapped reads % | 31.89% Average mapped length | 137.22 Number of splices: Total | 3500132 Number of splices: Annotated (sjdb) | 3310454 Number of splices: GT/AG | 3452539 Number of splices: GC/AG | 42279 Number of splices: AT/AC | 2747 Number of splices: Non-canonical | 2567 Mismatch rate per base, % | 0.24% Deletion rate per base | 0.01% Deletion average length | 1.76 Insertion rate per base | 0.00% Insertion average length | 1.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1170913 % of reads mapped to multiple loci | 4.18% Number of reads mapped to too many loci | 15434958 % of reads mapped to too many loci | 55.11% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.61% % of reads unmapped: other | 7.21% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 17906199 17906199 17906199 N_multimapping 1170913 1170913 1170913 N_noFeature 577122 8705361 647751 N_ambiguous 193596 836 39317 UnstrandedReadsAssigned:8160561 PositiveStrandReadsAssigned:225082 NegativeStrandReadsAssigned:8244211 Dataset is classified negative stranded MeadianReadLen=149 20thPercentileLength=122 echo kmer=117 SRR12682221 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: SRR12682221-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 28,008,391 reads, 8,460,100 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,108 rounds 52973 SRR12682221.ke.tsv 35125 SRR12682221.se.tsv 88098 total ==> SRR12682221.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 0 0 PNS24247 1044 945 22.4272 4.15113 PNS24249 1928 1829 50.1984 4.80065 PNS24246 1044 945 22.4272 4.15113 PNS24248 1044 945 22.4272 4.15113 PNS24244 1471 1372 77.5201 9.8829 PNS24243 293 194 0 0 KQK14069 1603 1504 3290.58 382.691 KQK14071 474 375 137.495 64.1326 ==> SRR12682221.se.tsv <== BRADI_1g14170v3 3662 BRADI_1g53295v3 36 BRADI_1g59795v3 134 BRADI_1g07683v3 0 BRADI_1g00485v3 27 BRADI_1g20270v3 614 BRADI_1g74790v3 106 BRADI_1g09890v3 0 BRADI_1g77505v3 99 BRADI_1g48960v3 0 SRR12682221 completed mapping pipeline successfully