Starting /dee2/code/volunteer_pipeline.sh SRR12682220 current disk space = 1547677835264 free memory = 1596451172 SRR12682220 SRAfilesize d654a16234b7d63574987696ddaba781 SRR12682220.sra SRR12682220.sra file validated SRR12682220 is single end SRR12682220 is conventional basespace SRR12682220 read1 length is 35-150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR12682220_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 31.61225 32.0 32.0 32.0 32.0 32.0 2 31.567 32.0 32.0 32.0 32.0 32.0 3 31.61575 32.0 32.0 32.0 32.0 32.0 4 31.6 32.0 32.0 32.0 32.0 32.0 5 31.684 32.0 32.0 32.0 32.0 32.0 6 34.825 36.0 36.0 36.0 36.0 36.0 7 35.2675 36.0 36.0 36.0 36.0 36.0 8 35.13025 36.0 36.0 36.0 36.0 36.0 9 35.01625 36.0 36.0 36.0 36.0 36.0 10-14 35.153549999999996 36.0 36.0 36.0 36.0 36.0 15-19 35.11375 36.0 36.0 36.0 36.0 36.0 20-24 35.0586 36.0 36.0 36.0 36.0 36.0 25-29 34.87265 36.0 36.0 36.0 32.8 36.0 30-34 34.89575 36.0 36.0 36.0 35.2 36.0 35-39 34.80866087771943 36.0 36.0 36.0 32.8 36.0 40-44 34.8131935685272 36.0 36.0 36.0 34.4 36.0 45-49 34.63806903451725 36.0 36.0 36.0 32.0 36.0 50-54 34.61344125903331 36.0 36.0 36.0 32.0 36.0 55-59 34.49021277848562 36.0 36.0 36.0 32.0 36.0 60-64 34.278859114704595 36.0 36.0 36.0 32.0 36.0 65-69 34.218415429755396 36.0 36.0 36.0 32.0 36.0 70-74 34.23580198722728 36.0 36.0 36.0 32.0 36.0 75-79 34.09451926724809 36.0 36.0 36.0 32.0 36.0 80-84 33.978044914243625 36.0 36.0 36.0 30.0 36.0 85-89 33.889587813951756 36.0 36.0 36.0 30.0 36.0 90-94 33.889045274018834 36.0 36.0 36.0 30.0 36.0 95-99 33.855714835494815 36.0 36.0 36.0 28.0 36.0 100-104 33.69292505590504 36.0 36.0 36.0 27.0 36.0 105-109 33.40618560754682 36.0 33.6 36.0 27.0 36.0 110-114 33.39950555624837 36.0 34.4 36.0 27.0 36.0 115-119 32.932137373113115 36.0 32.0 36.0 27.0 36.0 120-124 32.34984721867894 34.4 32.0 36.0 24.6 36.0 125-129 32.15645080741996 34.4 32.0 36.0 24.6 36.0 130-134 31.809741618679066 32.8 32.0 36.0 25.8 36.0 135-139 31.79804278051058 33.6 32.0 36.0 22.2 36.0 140-144 31.924602777485784 36.0 32.0 36.0 22.2 36.0 145-149 31.713371303218036 32.0 32.0 36.0 21.0 36.0 150 26.139112903225808 27.0 14.0 32.0 14.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 1.0 20 1.0 21 1.0 22 5.0 23 8.0 24 16.0 25 43.0 26 43.0 27 50.0 28 65.0 29 113.0 30 128.0 31 179.0 32 209.0 33 367.0 34 925.0 35 1846.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 31.6 10.45 8.325000000000001 49.625 2 24.25 12.275 30.7 32.775 3 20.525 14.95 20.05 44.474999999999994 4 27.05 23.724999999999998 17.4 31.825 5 27.625 26.625 22.125 23.625 6 23.971738581882413 30.63335856674237 22.81100176633863 22.58390108503659 7 18.675 22.400000000000002 36.6 22.325 8 19.55 20.474999999999998 31.525 28.449999999999996 9 21.375 19.85 33.275 25.5 10-14 23.14 26.035000000000004 24.445 26.38 15-19 23.565 24.015 25.535000000000004 26.884999999999998 20-24 24.23 24.695 24.72 26.355 25-29 23.425 23.835 24.455 28.285 30-34 23.990000000000002 22.62 24.529999999999998 28.860000000000003 35-39 23.53970794158832 23.929785957191438 24.56491298259652 27.965593118623726 40-44 24.472341702510754 24.29228768630589 23.802140642192658 27.433229968990698 45-49 23.641820910455227 23.821910955477737 24.74737368684342 27.788894447223612 50-54 23.137725749162037 24.3233778578218 24.923708039421683 27.615188353594476 55-59 23.489664147354723 23.835026778117022 25.016267080434456 27.659041994093798 60-64 23.805947732051667 22.789626514468807 25.673375388004406 27.73105036547512 65-69 23.33684263297739 23.873264149997496 25.001253321301448 27.788639895723666 70-74 23.80258330401568 23.410564406694476 24.767552897421723 28.01929939186812 75-79 24.39245739639004 24.125239487748313 23.464757487143288 28.01754562871836 80-84 23.733616719801628 23.53625828652396 24.325692019634634 28.40443297403977 85-89 23.63701212677061 23.484153673698156 24.99745235911546 27.881381840415777 90-94 23.50730903850113 24.078649372040353 24.269096149886764 28.14494543957175 95-99 23.1033943375567 23.744720788362272 24.599822722769694 28.55206215131133 100-104 24.020832226178456 23.037678694797258 24.50975182016262 28.431737258861666 105-109 23.68507381082559 23.73428102788409 24.937124111536356 27.643521049753968 110-114 25.118296529968454 24.318386660657954 24.03109508787742 26.532221721496168 115-119 24.191072272083137 22.827113840340104 24.94685876239962 28.034955125177135 120-124 24.002755338468283 23.896299079466466 25.017220865426765 27.083724716638486 125-129 23.89498172150216 24.26055167829844 23.19707544034563 28.647391159853775 130-134 24.653739612188367 23.19767028908303 24.199161872292066 27.949428226436535 135-139 24.82102056359482 23.90708301599391 23.92993145468393 27.341964965727346 140-144 24.226593747449186 24.022528773161376 23.940902783446248 27.80997469594319 145-149 25.169025511583882 22.14910303795186 23.84386550076625 28.838005949698008 150 25.873655913978492 0.0 34.946236559139784 39.18010752688172 >>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 0.0 24 0.0 25 0.0 26 0.5 27 0.5 28 0.5 29 1.0 30 2.5 31 2.5 32 5.0 33 9.0 34 10.5 35 17.5 36 36.0 37 43.5 38 55.0 39 65.0 40 76.0 41 90.0 42 85.5 43 97.5 44 113.5 45 122.5 46 155.0 47 181.5 48 201.5 49 225.5 50 212.0 51 208.5 52 211.0 53 181.0 54 169.0 55 179.0 56 165.5 57 137.0 58 119.0 59 106.5 60 90.5 61 80.5 62 72.5 63 70.5 64 62.5 65 48.5 66 46.5 67 45.0 68 39.0 69 33.0 70 33.0 71 28.5 72 23.0 73 19.0 74 11.0 75 12.5 76 14.0 77 7.0 78 4.0 79 3.5 80 3.0 81 1.0 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 0.5 >>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 0.9249999999999999 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 0.00502563071665494 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.005314061005420342 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 2.0 55-59 1.0 60-64 1.0 65-69 9.0 70-74 13.0 75-79 14.0 80-84 17.0 85-89 40.0 90-94 38.0 95-99 67.0 100-104 93.0 105-109 106.0 110-114 134.0 115-119 189.0 120-124 201.0 125-129 178.0 130-134 194.0 135-139 173.0 140-144 202.0 145-149 838.0 150-151 1488.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 78.825 #Duplication Level Percentage of deduplicated Percentage of total 1 87.88455439264193 69.27499999999999 2 6.152870282270853 9.700000000000001 3 2.5055502695845226 5.925 4 1.6809387884554394 5.3 5 0.6660323501427212 2.625 6 0.3171582619727244 1.5 7 0.22201078338090707 1.225 8 0.22201078338090707 1.4000000000000001 9 0.12686330478908975 0.8999999999999999 >10 0.22201078338090707 2.15 >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 CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 13 0.325 No Hit CCCAACTTTCGTTCTTGATTAATGAAAACATCCTTGGCAAATGCTTTCGC 12 0.3 No Hit CTCTGACTATGAAATACGAATGCCCCCGACTGTCCCTATTAATCATTACT 12 0.3 No Hit ATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCTATA 12 0.3 No Hit CCTAATTCTCCGTCACCCGTCACCACCATGGTAGGCCCCTATCCTACCAT 10 0.25 No Hit CCCATCACGATGAAATTTCCCAAGATTACCCGGGCCTGTCGGCCAAGGCT 10 0.25 No Hit CTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTATA 9 0.22499999999999998 No Hit CCCGTGTCAGGATTGGGTAATTTGCGCGCCTGCTGCCTTCCTTGGATGTG 9 0.22499999999999998 No Hit CTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGG 9 0.22499999999999998 No Hit GTCGAGTTATCATGAATCATCGGATCAGCGAGCAAAGCCCGCGTCAGCCT 9 0.22499999999999998 No Hit CCCCGCTCAGGCATAGTTCACCATCTTTCGGGTCCCGACAGGCGTGCTCC 8 0.2 No Hit CTGTTATTGCCTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAG 8 0.2 No Hit GTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACT 8 0.2 No Hit CAACAACTTAAATATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGC 8 0.2 No Hit CCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGA 8 0.2 No Hit GCCGCAGGCTCCACGCCTGGTGGTGCCCTTCCGTCAATTCCTTTAAGTTT 8 0.2 No Hit CCCCGACTGTCCCTATTAATCATTACTCCGATCCCGAAGGCCAACACAAT 8 0.2 No Hit CTTGTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTC 7 0.17500000000000002 No Hit GGCAGAAATTTGAATGATGCGTCGCCGGCACGAGGGCCGTGCGATCCGTC 7 0.17500000000000002 No Hit GCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCCAATGGATCCT 7 0.17500000000000002 No Hit GGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGC 7 0.17500000000000002 No Hit CTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATT 7 0.17500000000000002 No Hit CCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTATA 7 0.17500000000000002 No Hit CACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTT 7 0.17500000000000002 No Hit CTTCCGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGA 6 0.15 No Hit CCCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTA 6 0.15 No Hit CTTGGCAAATGCTTTCGCAGTTGTTCGTCTTTCATAAATCCAAGAATTTC 6 0.15 No Hit CTCGCGGTACTTGTTCGCTATCGGTCTCTCGCCTGTATTTAGCCTTGGAC 6 0.15 No Hit GGCTTTACCTGATAGAACTCGTAATGGGCTCCAGCTATCCTGAGGGAAAC 6 0.15 No Hit CATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACC 6 0.15 No Hit CAGCCTTTTATCTAATAAATGCGCCCCTCCCAGAAGTCGGGGTTTGTTGC 6 0.15 No Hit CGTCAATTCCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCC 6 0.15 No Hit CACCATCTTTCGGGTCCCGACAGGCGTGCTCCAACTCGAACCCTTCACAG 6 0.15 No Hit TGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATTT 6 0.15 No Hit CACCTCTCAAGTCATTTCACAAAGTCGGACTAGAGTCAAGCTCAACAGGG 5 0.125 No Hit GTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCT 5 0.125 No Hit CCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCCGGCGGAGTCCTAT 5 0.125 No Hit GTTACGACTTCTCCTTCCTCTAAATGATAAGGTTCAATGGACTTCTCGCG 5 0.125 No Hit CCGGTATTGTTATTTATTGTCACTACCTCCCCGTGTCAGGATTGGGTAAT 5 0.125 No Hit CGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACT 5 0.125 No Hit TTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCAAAGACTTTG 5 0.125 No Hit CCGAAGGCCAACACAATAGGACCGGAATCCTATGATGTTATCCCATGCTA 5 0.125 No Hit CGTCGCCGGCACGAGGGCCGTGCGATCCGTCGAGTTATCATGAATCATCG 5 0.125 No Hit CCCGATTCCATGGCGCGGCTCACCGGAGCAGCCGCGCCGTCCTACCTATT 5 0.125 No Hit CCAACTACGAGCTTTTTAACTGCAACAACTTAAATATACGCTATTGGAGC 5 0.125 No Hit CTTGTCCGTACCAGTTCTGAGTCGACTGTTCAGCGCTCGGGGAAAGCCCC 5 0.125 No Hit GTCCTTTTCATCTTTCCCTCGCGGTACTTGTTCGCTATCGGTCTCTCGCC 5 0.125 No Hit ACCGCGGCTGCTGGCACCAGACTTGCCCTCCAATGGATCCTCGTTAAGGG 5 0.125 No Hit CTCAAACTTCCGTCGCCTAAACGGCGATAGTCCCTCTAAGAAGCTAGCTG 5 0.125 No Hit CTCTAATCATTGGCTTTACCTGATAGAACTCGTAATGGGCTCCAGCTATC 5 0.125 No Hit CCCGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGC 5 0.125 No Hit CTCTAGAATTACTACGGTTATCCGAGTAGCACGTACCATCAAACAAACTA 5 0.125 No Hit CCTTGGCAAATGCTTTCGCAGTTGTTCGTCTTTCATAAATCCAAGAATTT 5 0.125 No Hit CGGCATCGTTTATGGTTGAGACTAGGACGGTATCTGATCGTCTTCGAGCC 5 0.125 No Hit GTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGA 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 0.0125 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 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576076 READS because READLEN < 1 Read 1576076 spots for SRR12682220.sra Written 1576076 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra Rejected 1576065 READS because READLEN < 1 Read 1576065 spots for SRR12682220.sra Written 1576065 spots for SRR12682220.sra SRR ids: ['SRR12682220.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_6ecb_2zf SRR12682220.sra spots: 31521311 blocks: [[1, 1576065], [1576066, 3152130], [3152131, 4728195], [4728196, 6304260], [6304261, 7880325], [7880326, 9456390], [9456391, 11032455], [11032456, 12608520], [12608521, 14184585], [14184586, 15760650], [15760651, 17336715], [17336716, 18912780], [18912781, 20488845], [20488846, 22064910], [22064911, 23640975], [23640976, 25217040], [25217041, 26793105], [26793106, 28369170], [28369171, 29945235], [29945236, 31521311]] SRR12682220 file size 9822104 SRR12682220 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 SRR12682220 SRR12682220_1.fastq Input file: SRR12682220_1.fastq trimmed: SRR12682220-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 03:12:24 2024 >> started Sat Dec 7 03:12:43 2024 >> done (18.966s) 31521311 reads processed; of these: 0 ( 0.00%) short reads filtered out after trimming by size control 1658 ( 0.01%) empty reads filtered out after trimming by size control 31519653 (99.99%) reads available; of these: 15000 ( 0.05%) trimmed reads available after processing 31504653 (99.95%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 22 16 0.00% 23 17 0.00% 24 17 0.00% 25 35 0.00% 26 49 0.00% 27 54 0.00% 28 63 0.00% 29 92 0.00% 30 116 0.00% 31 132 0.00% 32 146 0.00% 33 162 0.00% 34 187 0.00% 35 195 0.00% 36 246 0.00% 37 306 0.00% 38 374 0.00% 39 460 0.00% 40 533 0.00% 41 644 0.00% 42 670 0.00% 43 689 0.00% 44 692 0.00% 45 727 0.00% 46 847 0.00% 47 1053 0.00% 48 1261 0.00% 49 1575 0.00% 50 1727 0.01% 51 1958 0.01% 52 2233 0.01% 53 2177 0.01% 54 2303 0.01% 55 2516 0.01% 56 2754 0.01% 57 3193 0.01% 58 3990 0.01% 59 4250 0.01% 60 4684 0.01% 61 5309 0.02% 62 5967 0.02% 63 6261 0.02% 64 6733 0.02% 65 7160 0.02% 66 7749 0.02% 67 8822 0.03% 68 9228 0.03% 69 10302 0.03% 70 10977 0.03% 71 13149 0.04% 72 14687 0.05% 73 16269 0.05% 74 17179 0.05% 75 18254 0.06% 76 20467 0.06% 77 21558 0.07% 78 23359 0.07% 79 26277 0.08% 80 28253 0.09% 81 30693 0.10% 82 34481 0.11% 83 36170 0.11% 84 39804 0.13% 85 45724 0.15% 86 51595 0.16% 87 54596 0.17% 88 58471 0.19% 89 61144 0.19% 90 66208 0.21% 91 68755 0.22% 92 78401 0.25% 93 84458 0.27% 94 88680 0.28% 95 99613 0.32% 96 107425 0.34% 97 113285 0.36% 98 128279 0.41% 99 128560 0.41% 100 133657 0.42% 101 138030 0.44% 102 148000 0.47% 103 158594 0.50% 104 166795 0.53% 105 169113 0.54% 106 177753 0.56% 107 191837 0.61% 108 184965 0.59% 109 202278 0.64% 110 203181 0.64% 111 214291 0.68% 112 232941 0.74% 113 228627 0.73% 114 246492 0.78% 115 262261 0.83% 116 268167 0.85% 117 259826 0.82% 118 259772 0.82% 119 270919 0.86% 120 288046 0.91% 121 275168 0.87% 122 302279 0.96% 123 314500 1.00% 124 296887 0.94% 125 296736 0.94% 126 304055 0.96% 127 297751 0.94% 128 302600 0.96% 129 318217 1.01% 130 303498 0.96% 131 303034 0.96% 132 306294 0.97% 133 313745 1.00% 134 299407 0.95% 135 304256 0.97% 136 311990 0.99% 137 311646 0.99% 138 294966 0.94% 139 302324 0.96% 140 297476 0.94% 141 287253 0.91% 142 283531 0.90% 143 283108 0.90% 144 292423 0.93% 145 280584 0.89% 146 338407 1.07% 147 557972 1.77% 148 1215903 3.86% 149 4160909 13.20% 150 11659744 36.99% 31519653 reads passed initial QC criterion=sequence-density sequence-density=0.94 sequence-density-rank=1 fanout-score=2.82 fanout-score-rank=31 prefix-density=0.95 prefix-fanout=2.8 sequence=CCCAGCTCACGTTCCCTATTGGTGGGTGAACAATCCAACACTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCACAAGCCAGTTATCCCTGTGGTAACTTTTCTGACACCTCTAGCTTCAAACTCCGAAGATCTAAAGGATCGATAGGCCACGCTTTCACGGTTCGTATTCGTACTGGAAATCAGAATCAAACGAGCTTTTACCCTTTTGTTCCACACGAGATTTCTGTTCTCGTTGAGCTCATCTTAGGACACCTGCGTTATCTTTTAACAGATGTGCCGCCCCAGCCAAACTCCCCACCTGACAATGTCTTCCGCCCGGATCGGCCCGGTCAGACCGGGCCTTGGAGCCAAAAGGAGGGGACTTGCCCCGCTTCCGACCCACGGAATAAGTAAAATAACGTTAAAAGTAGTGGTATTTCACTTGCGCCCGTAAAGGCTCCCACTTATCCTACACCTCTC criterion=fanout-score sequence-density=0.05 sequence-density-rank=26 fanout-score=37.98 fanout-score-rank=1 prefix-density=1.94 prefix-fanout=1.1 sequence=GCTGCTGGCACAGAGTTAGCCGATGCTTATTCCTCAGATACCGTCATTGTTTCTTCTCCGAGAAAAGAAGTTGACGACCCGTAGGCCTTCCACCTCCACGCGGCATTGCTCCGTCAGGCTTTCGCCCATTGCGGAAAATTCCCCACTGCTGCCTCCCGTAGGAGTCTGGGCCGTGTCTCAGTCCCAGTGTGGCTGATCATCCTCTCGGACCAGCTACTGATCATCGCCTTGGTAAGCTATTGCCTCACCAACTAGCTAATCAGACGCGAGCCCCTCCTTGGGCGGATTTCTCCTTTTGCTCCTCAGCCTACGGGGTATTAGCAACCGTTTCCAGTTGTTGTTCCCCTCCCAAGGGCAGGTTCTTACGCGTTACTCACCCGTTCGCCACTGGAAACACCACTTCCCGTTCGACTTGCATGTGTTAAGCATGCCGCCAGCGTTCATCCTGAGCCAGGATCGAAC Started job on | Dec 07 03:13:01 Started mapping on | Dec 07 03:13:01 Finished on | Dec 07 03:14:35 Mapping speed, Million of reads per hour | 1207.14 Number of input reads | 31519653 Average input read length | 136 UNIQUE READS: Uniquely mapped reads number | 13416649 Uniquely mapped reads % | 42.57% Average mapped length | 136.86 Number of splices: Total | 5556618 Number of splices: Annotated (sjdb) | 5256552 Number of splices: GT/AG | 5481341 Number of splices: GC/AG | 66401 Number of splices: AT/AC | 4302 Number of splices: Non-canonical | 4574 Mismatch rate per base, % | 0.24% Deletion rate per base | 0.01% Deletion average length | 1.56 Insertion rate per base | 0.00% Insertion average length | 1.12 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1066413 % of reads mapped to multiple loci | 3.38% Number of reads mapped to too many loci | 14709722 % of reads mapped to too many loci | 46.67% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 1.37% % of reads unmapped: other | 6.01% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 17036591 17036591 17036591 N_multimapping 1066413 1066413 1066413 N_noFeature 623875 13092844 728013 N_ambiguous 262752 1335 44153 UnstrandedReadsAssigned:12530022 PositiveStrandReadsAssigned:322470 NegativeStrandReadsAssigned:12644483 Dataset is classified negative stranded MeadianReadLen=149 20thPercentileLength=121 echo kmer=117 SRR12682220 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: SRR12682220-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 31,519,653 reads, 12,920,906 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,329 rounds 52973 SRR12682220.ke.tsv 35125 SRR12682220.se.tsv 88098 total ==> SRR12682220.ke.tsv <== target_id length eff_length est_counts tpm PNS24245 936 837 63.5288 8.82366 PNS24247 1044 945 11.6667 1.43522 PNS24249 1928 1829 141.711 9.0073 PNS24246 1044 945 11.6667 1.43522 PNS24248 1044 945 11.6667 1.43522 PNS24244 1471 1372 115.76 9.80862 PNS24243 293 194 0 0 KQK14069 1603 1504 6183.19 477.935 KQK14071 474 375 299.102 92.7239 ==> SRR12682220.se.tsv <== BRADI_1g14170v3 6843 BRADI_1g53295v3 60 BRADI_1g59795v3 205 BRADI_1g07683v3 0 BRADI_1g00485v3 7 BRADI_1g20270v3 1030 BRADI_1g74790v3 175 BRADI_1g09890v3 0 BRADI_1g77505v3 134 BRADI_1g48960v3 0 SRR12682220 completed mapping pipeline successfully