Starting /dee2/code/volunteer_pipeline.sh SRR7171450 current disk space = 3117828411392 free memory = 1287845312 SRR7171450 SRAfilesize a7d717a02f9cebd1c1c55c2acb778e4e SRR7171450.sra SRR7171450.sra file validated SRR7171450 is paired end SRR7171450 is conventional basespace SRR7171450 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7171450_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 45 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.976 34.0 33.0 34.0 32.0 34.0 2 33.2545 34.0 33.0 34.0 32.0 34.0 3 33.233 34.0 33.0 34.0 32.0 34.0 4 33.25525 34.0 33.0 34.0 33.0 34.0 5 33.27275 34.0 33.0 34.0 33.0 34.0 6 36.87625 38.0 37.0 38.0 35.0 38.0 7 37.269 38.0 38.0 38.0 36.0 38.0 8 37.451 38.0 38.0 38.0 37.0 38.0 9 37.54775 38.0 38.0 38.0 38.0 38.0 10-14 37.49929999999999 38.0 38.0 38.0 38.0 38.0 15-19 37.4707 38.0 38.0 38.0 37.6 38.0 20-24 37.5073 38.0 38.0 38.0 37.8 38.0 25-29 37.36955 38.0 38.0 38.0 37.0 38.0 30-34 37.37675 38.0 38.0 38.0 37.0 38.0 35-39 37.41330000000001 38.0 38.0 38.0 37.2 38.0 40-44 37.347899999999996 38.0 38.0 38.0 37.0 38.0 45-49 37.41915 38.0 38.0 38.0 37.2 38.0 50-54 37.38295 38.0 38.0 38.0 37.0 38.0 55-59 37.31529999999999 38.0 38.0 38.0 37.0 38.0 60-64 37.277150000000006 38.0 38.0 38.0 37.0 38.0 65-69 37.2838 38.0 38.0 38.0 36.8 38.0 70-74 37.18320000000001 38.0 38.0 38.0 36.2 38.0 75-79 37.112849999999995 38.0 38.0 38.0 36.0 38.0 80-84 37.03215 38.0 38.0 38.0 36.0 38.0 85-89 37.055099999999996 38.0 38.0 38.0 36.0 38.0 90-94 36.97805 38.0 38.0 38.0 36.0 38.0 95-99 36.760749999999994 38.0 38.0 38.0 35.0 38.0 100-104 36.58765 38.0 38.0 38.0 34.0 38.0 105-109 36.638349999999996 38.0 38.0 38.0 34.2 38.0 110-114 36.54085 38.0 38.0 38.0 34.2 38.0 115-119 36.562200000000004 38.0 38.0 38.0 34.0 38.0 120-124 36.49145 38.0 38.0 38.0 34.0 38.0 125-129 36.39525 38.0 38.0 38.0 34.0 38.0 130-134 36.187400000000004 38.0 37.4 38.0 33.0 38.0 135-139 36.00935 38.0 36.8 38.0 32.6 38.0 140-144 35.93435 38.0 36.2 38.0 32.8 38.0 145-149 35.73934999999999 38.0 36.0 38.0 31.8 38.0 150-151 33.372375 36.5 32.0 38.0 22.5 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 19 1.0 20 1.0 21 0.0 22 2.0 23 3.0 24 2.0 25 7.0 26 12.0 27 20.0 28 23.0 29 25.0 30 28.0 31 42.0 32 61.0 33 94.0 34 116.0 35 215.0 36 481.0 37 2867.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 38.61286254728878 11.0718789407314 11.147540983606557 39.16771752837327 2 21.675 15.2 32.625 30.5 3 20.175 18.975 24.25 36.6 4 23.75 25.074999999999996 23.175 28.000000000000004 5 23.025000000000002 29.45 24.325 23.200000000000003 6 20.95 32.550000000000004 24.224999999999998 22.275 7 14.85 25.7 42.275 17.175 8 17.675 25.224999999999998 31.45 25.650000000000002 9 17.875 24.575 33.275 24.275 10-14 19.685 28.765 27.279999999999998 24.27 15-19 19.925 28.03 27.52 24.525 20-24 20.175 28.575 27.52 23.73 25-29 20.60412082416483 28.395679135827166 27.120424084816964 23.879775955191036 30-34 20.05703422053232 28.59715829497699 27.336401841104664 24.00940564338603 35-39 20.196107859322627 28.400620341187654 27.139926959827903 24.263344839661812 40-44 20.04602531392266 28.05042773525439 27.77527640202111 24.12827054880184 45-49 20.595297648824413 27.55877938969485 27.063531765882942 24.7823911955978 50-54 20.207020702070206 28.357835783578356 27.097709770977097 24.337433743374337 55-59 20.285 28.139999999999997 27.325 24.25 60-64 20.185 28.389999999999997 26.979999999999997 24.445 65-69 19.845 27.785 27.975 24.395 70-74 20.575 27.685 27.644999999999996 24.095 75-79 20.635 27.6 27.625 24.14 80-84 20.315 27.345000000000002 28.26 24.08 85-89 20.94 27.584999999999997 27.465 24.01 90-94 20.44 27.860000000000003 27.915 23.785 95-99 20.555 28.27 27.229999999999997 23.945 100-104 21.255 27.860000000000003 27.169999999999998 23.715 105-109 20.75 27.96 27.345000000000002 23.945 110-114 21.025 28.125 26.919999999999998 23.93 115-119 20.72 27.83 27.49 23.96 120-124 20.965 27.85 27.12 24.065 125-129 21.58 28.060000000000002 26.115 24.245 130-134 20.794999999999998 27.79 26.97 24.445 135-139 20.94 28.165000000000003 26.515 24.38 140-144 21.57 27.944999999999997 26.295 24.19 145-149 21.795 28.384999999999998 25.355 24.465 150-151 21.3125 28.775000000000002 25.9875 23.925 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.5 4 0.5 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 0.0 20 0.0 21 0.0 22 0.0 23 1.5 24 2.0 25 1.5 26 1.5 27 3.0 28 4.5 29 6.5 30 14.5 31 24.0 32 31.0 33 32.0 34 38.5 35 48.5 36 67.0 37 96.0 38 110.5 39 137.0 40 171.0 41 198.5 42 239.5 43 265.0 44 270.0 45 273.0 46 285.0 47 263.0 48 236.5 49 233.5 50 194.5 51 158.5 52 131.0 53 108.0 54 84.0 55 65.5 56 53.0 57 36.0 58 28.0 59 18.5 60 11.5 61 9.5 62 10.5 63 8.0 64 5.0 65 4.0 66 3.0 67 3.0 68 4.0 69 2.0 70 0.0 71 0.5 72 1.0 73 2.0 74 2.0 75 0.5 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 0.8750000000000001 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 0.0 25-29 0.02 30-34 0.06 35-39 0.055 40-44 0.055 45-49 0.05 50-54 0.01 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 pass #Total Deduplicated Percentage 99.625 #Duplication Level Percentage of deduplicated Percentage of total 1 99.62358845671268 99.25 2 0.37641154328732745 0.75 3 0.0 0.0 4 0.0 0.0 5 0.0 0.0 6 0.0 0.0 7 0.0 0.0 8 0.0 0.0 9 0.0 0.0 >10 0.0 0.0 >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 pass >>END_MODULE >>Adapter Content fail #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 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 0.0125 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.07500000000000001 0.0 0.0 0.0 0.0 76-77 0.1 0.0 0.0 0.0 0.0 78-79 0.1 0.0 0.0 0.0 0.0 80-81 0.125 0.0 0.0 0.0 0.0 82-83 0.175 0.0 0.0 0.0 0.0 84-85 0.2 0.0 0.0 0.0 0.0 86-87 0.2875 0.0 0.0 0.0 0.0 88-89 0.4375 0.0 0.0 0.0 0.0 90-91 0.5125 0.0 0.0 0.0 0.0 92-93 0.6 0.0 0.0 0.0 0.0 94-95 0.7625 0.0 0.0 0.0 0.0 96-97 0.925 0.0 0.0 0.0 0.0 98-99 1.125 0.0 0.0 0.0 0.0 100-101 1.3625 0.0 0.0 0.0 0.0 102-103 1.6375 0.0 0.0 0.0 0.0 104-105 1.775 0.0 0.0 0.0 0.0 106-107 2.025 0.0 0.0 0.0 0.0 108-109 2.3875 0.0 0.0 0.0 0.0 110-111 2.75 0.0 0.0 0.0 0.0 112-113 3.1375 0.0 0.0 0.0 0.0 114-115 3.5375 0.0 0.0 0.0 0.0 116-117 3.975 0.0 0.0 0.0 0.0 118-119 4.4375 0.0 0.0 0.0 0.0 120-121 5.0125 0.0 0.0 0.0 0.0 122-123 5.525 0.0 0.0 0.0 0.0 124-125 6.15 0.0 0.0 0.0 0.0 126-127 6.800000000000001 0.0 0.0 0.0 0.0 128-129 7.387499999999999 0.0 0.0 0.0 0.0 130-131 8.087499999999999 0.0 0.0 0.0 0.0 132-133 8.775 0.0 0.0 0.0 0.0 134-135 9.575 0.0 0.0 0.0 0.0 136-137 10.274999999999999 0.0 0.0 0.0 0.0 138-139 11.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR7171450 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7171450_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 45 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.57925 33.0 33.0 34.0 32.0 34.0 2 32.6505 33.0 33.0 34.0 32.0 34.0 3 32.7325 34.0 33.0 34.0 32.0 34.0 4 32.48525 34.0 33.0 34.0 31.0 34.0 5 32.59925 34.0 33.0 34.0 32.0 34.0 6 36.6075 38.0 38.0 38.0 35.0 38.0 7 36.59775 38.0 38.0 38.0 34.0 38.0 8 36.55575 38.0 38.0 38.0 34.0 38.0 9 36.6655 38.0 38.0 38.0 35.0 38.0 10-14 36.70635 38.0 38.0 38.0 35.2 38.0 15-19 36.9216 38.0 38.0 38.0 36.0 38.0 20-24 36.9385 38.0 38.0 38.0 36.0 38.0 25-29 37.058949999999996 38.0 38.0 38.0 36.6 38.0 30-34 37.045100000000005 38.0 38.0 38.0 36.2 38.0 35-39 36.95255 38.0 38.0 38.0 36.0 38.0 40-44 36.91745 38.0 38.0 38.0 36.0 38.0 45-49 36.930150000000005 38.0 38.0 38.0 36.0 38.0 50-54 36.83505 38.0 38.0 38.0 35.8 38.0 55-59 36.87305 38.0 38.0 38.0 36.0 38.0 60-64 36.78915 38.0 38.0 38.0 35.4 38.0 65-69 36.85595000000001 38.0 38.0 38.0 36.0 38.0 70-74 36.84575 38.0 38.0 38.0 35.6 38.0 75-79 36.8624 38.0 38.0 38.0 35.8 38.0 80-84 36.8304 38.0 38.0 38.0 35.4 38.0 85-89 36.725249999999996 38.0 38.0 38.0 35.2 38.0 90-94 36.649950000000004 38.0 38.0 38.0 35.0 38.0 95-99 36.557 38.0 38.0 38.0 34.8 38.0 100-104 36.42975 38.0 38.0 38.0 34.0 38.0 105-109 36.32735 38.0 38.0 38.0 34.0 38.0 110-114 36.2813 38.0 38.0 38.0 34.0 38.0 115-119 35.96045 38.0 37.6 38.0 32.2 38.0 120-124 35.9104 38.0 37.4 38.0 32.6 38.0 125-129 35.8207 38.0 37.0 38.0 31.4 38.0 130-134 35.604600000000005 38.0 36.2 38.0 31.0 38.0 135-139 35.376999999999995 38.0 36.0 38.0 29.2 38.0 140-144 35.1019 38.0 35.6 38.0 28.0 38.0 145-149 34.7502 38.0 35.0 38.0 24.4 38.0 150-151 32.134 35.5 28.0 38.0 19.5 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 2.0 3 1.0 4 0.0 5 1.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 1.0 13 0.0 14 1.0 15 2.0 16 4.0 17 2.0 18 3.0 19 7.0 20 9.0 21 10.0 22 8.0 23 11.0 24 14.0 25 14.0 26 19.0 27 24.0 28 37.0 29 40.0 30 39.0 31 50.0 32 85.0 33 100.0 34 124.0 35 211.0 36 471.0 37 2710.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 36.55241431073305 20.640480360270203 15.586690017513135 27.220415311483613 2 27.077077077077078 26.926926926926924 29.02902902902903 16.966966966966968 3 21.046046046046047 28.303303303303302 29.57957957957958 21.07107107107107 4 25.400400400400404 32.107107107107105 23.423423423423422 19.06906906906907 5 23.823823823823822 35.63563563563564 22.17217217217217 18.36836836836837 6 22.525682786269105 37.48433976447006 22.325231771485843 17.66474567777499 7 20.66115702479339 22.238918106686704 36.86451289757075 20.235411970949162 8 23.810716074111166 24.386579869804706 26.69003505257887 25.112669003505257 9 22.294589178356713 24.749498997995993 29.63426853707415 23.321643286573146 10-14 24.110632327888563 28.489828640144303 25.608778434712896 21.790760597254234 15-19 23.118548952800882 28.068944784046497 27.076861408958813 21.735644854193804 20-24 23.967522052927027 27.967121090617482 26.89454691259022 21.170809943865276 25-29 23.739169629889318 28.226573846847298 27.275003756197723 20.759252767065657 30-34 23.537360492467844 28.702267153796107 26.214904158951 21.545468194785045 35-39 23.842882161621215 28.15611708781586 26.95021265949462 21.050788091068302 40-44 24.13033685369638 27.94434155863657 27.008358776715554 20.9169628109515 45-49 23.744177893524316 27.290028547102718 27.815896228777483 21.149897330595483 50-54 24.100611283695763 27.748271369876743 27.18709289507967 20.96402445134783 55-59 23.89234161988773 27.771651964715318 27.290497193263835 21.04550922213312 60-64 23.52440124260948 27.983765908407655 27.55286100811705 20.93897184086582 65-69 24.546820230345517 28.022033049574365 26.514772158237353 20.916374561842765 70-74 24.25804514288574 27.636254441719633 27.160802762624492 20.94489765277013 75-79 24.484690814488694 27.116269761857115 27.571542925755455 20.82749649789874 80-84 23.648006403521936 27.90034518985442 27.390064535494524 21.061583871129123 85-89 24.36936936936937 27.94794794794795 26.981981981981985 20.7007007007007 90-94 24.370463078848562 27.424280350438046 27.46433041301627 20.74092615769712 95-99 24.184578385690667 27.401172403427026 27.606593516709253 20.807655694173054 100-104 24.650323356895772 28.039304156013433 27.066726826089138 20.243645661001654 105-109 24.601423844379823 27.589491627393965 27.474180286774292 20.33490424145192 110-114 24.74180286774291 28.080818209164743 26.802366389250977 20.37501253384137 115-119 25.042615060663792 27.554396871553195 26.862528827835153 20.540459239947857 120-124 24.90229481912015 28.189197314360154 26.691051207535825 20.217456658983863 125-129 25.310372446936324 27.833400080096116 26.822186623948742 20.034040849018822 130-134 25.32032032032032 28.433433433433436 26.38138138138138 19.864864864864863 135-139 25.885121939005458 27.89323451349592 26.481045620712102 19.740597926786517 140-144 26.37357128534189 28.143172247844394 26.087828353719672 19.39542811309404 145-149 26.376215782613055 28.266319061465957 26.316053344028877 19.041411811892107 150-151 26.64160401002506 27.907268170426065 25.877192982456144 19.573934837092732 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 2.0 1 1.0 2 0.0 3 0.0 4 0.0 5 1.0 6 1.0 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 1.0 17 1.5 18 0.5 19 0.0 20 0.0 21 0.5 22 1.0 23 0.5 24 1.0 25 3.0 26 2.0 27 0.5 28 3.0 29 7.0 30 7.0 31 7.0 32 12.0 33 19.0 34 32.5 35 50.5 36 57.5 37 65.5 38 100.0 39 161.0 40 200.5 41 216.0 42 251.5 43 273.0 44 284.0 45 296.0 46 279.0 47 264.0 48 245.5 49 226.5 50 207.5 51 159.5 52 123.5 53 101.5 54 76.5 55 63.5 56 46.0 57 28.5 58 24.5 59 19.0 60 16.5 61 12.5 62 6.0 63 6.0 64 6.0 65 5.5 66 5.0 67 5.5 68 5.5 69 2.5 70 1.0 71 1.0 72 1.5 73 1.0 74 0.0 75 0.0 76 0.0 77 0.0 78 0.5 79 0.5 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 0.075 2 0.1 3 0.1 4 0.1 5 0.1 6 0.22499999999999998 7 0.17500000000000002 8 0.15 9 0.2 10-14 0.21 15-19 0.21 20-24 0.24 25-29 0.165 30-34 0.095 35-39 0.075 40-44 0.105 45-49 0.165 50-54 0.21 55-59 0.24 60-64 0.21 65-69 0.15 70-74 0.095 75-79 0.06 80-84 0.055 85-89 0.1 90-94 0.125 95-99 0.20500000000000002 100-104 0.265 105-109 0.27 110-114 0.27 115-119 0.27 120-124 0.21 125-129 0.12 130-134 0.1 135-139 0.155 140-144 0.26 145-149 0.27 150-151 0.25 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 99.575 #Duplication Level Percentage of deduplicated Percentage of total 1 99.72382626161185 99.3 2 0.22596033140848606 0.44999999999999996 3 0.025106703489831784 0.075 4 0.0 0.0 5 0.0 0.0 6 0.0 0.0 7 0.025106703489831784 0.17500000000000002 8 0.0 0.0 9 0.0 0.0 >10 0.0 0.0 >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 ACCAGCTTGAGCAAATTCAGTTTCTAAGCAAAAGCTTTCCAGGCCCCTTT 7 0.17500000000000002 No Hit >>END_MODULE >>Adapter Content fail #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 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 0.0125 0.0 0.0 0.0 0.0 66-67 0.05 0.0 0.0 0.0 0.0 68-69 0.05 0.0 0.0 0.0 0.0 70-71 0.05 0.0 0.0 0.0 0.0 72-73 0.05 0.0 0.0 0.0 0.0 74-75 0.07500000000000001 0.0 0.0 0.0 0.0 76-77 0.1 0.0 0.0 0.0 0.0 78-79 0.1 0.0 0.0 0.0 0.0 80-81 0.125 0.0 0.0 0.0 0.0 82-83 0.175 0.0 0.0 0.0 0.0 84-85 0.2 0.0 0.0 0.0 0.0 86-87 0.2875 0.0 0.0 0.0 0.0 88-89 0.4375 0.0 0.0 0.0 0.0 90-91 0.5 0.0 0.0 0.0 0.0 92-93 0.6 0.0 0.0 0.0 0.0 94-95 0.7124999999999999 0.0 0.0 0.0 0.0 96-97 0.8625 0.0 0.0 0.0 0.0 98-99 1.075 0.0 0.0 0.0 0.0 100-101 1.3125 0.0 0.0 0.0 0.0 102-103 1.5875 0.0 0.0 0.0 0.0 104-105 1.725 0.0 0.0 0.0 0.0 106-107 2.0 0.0 0.0 0.0 0.0 108-109 2.3375 0.0 0.0 0.0 0.0 110-111 2.7 0.0 0.0 0.0 0.0 112-113 3.1125 0.0 0.0 0.0 0.0 114-115 3.5250000000000004 0.0 0.0 0.0 0.0 116-117 3.9875 0.0 0.0 0.0 0.0 118-119 4.4875 0.0 0.0 0.0 0.0 120-121 5.0625 0.0 0.0 0.0 0.0 122-123 5.575 0.0 0.0 0.0 0.0 124-125 6.199999999999999 0.0 0.0 0.0 0.0 126-127 6.85 0.0 0.0 0.0 0.0 128-129 7.4375 0.0 0.0 0.0 0.0 130-131 8.1375 0.0 0.0 0.0 0.0 132-133 8.8375 0.0 0.0 0.0 0.0 134-135 9.6875 0.0 0.0 0.0 0.0 136-137 10.350000000000001 0.0 0.0 0.0 0.0 138-139 11.100000000000001 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GTTCAGA 10 0.00682755 145.0 1 >>END_MODULE Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra Read 1158760 spots for SRR7171450.sra Written 1158760 spots for SRR7171450.sra Read 1158748 spots for SRR7171450.sra Written 1158748 spots for SRR7171450.sra SRR ids: ['SRR7171450.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_u5syrf6w SRR7171450.sra spots: 23174972 blocks: [[1, 1158748], [1158749, 2317496], [2317497, 3476244], [3476245, 4634992], [4634993, 5793740], [5793741, 6952488], [6952489, 8111236], [8111237, 9269984], [9269985, 10428732], [10428733, 11587480], [11587481, 12746228], [12746229, 13904976], [13904977, 15063724], [15063725, 16222472], [16222473, 17381220], [17381221, 18539968], [18539969, 19698716], [19698717, 20857464], [20857465, 22016212], [22016213, 23174972]] SRR7171450 file size 7831537 SRR7171450 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 SRR7171450 SRR7171450_1.fastq SRR7171450_2.fastq Input file: SRR7171450_1.fastq Paired file: SRR7171450_2.fastq trimmed: SRR7171450-trimmed-pair1.fastq, SRR7171450-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 Fri Feb 14 08:41:12 2025 >> started Fri Feb 14 08:41:40 2025 >> done (28.242s) 23174972 read pairs processed; of these: 1236 ( 0.01%) short read pairs filtered out after trimming by size control 2844 ( 0.01%) empty read pairs filtered out after trimming by size control 23170892 (99.98%) read pairs available; of these: 3771578 (16.28%) trimmed read pairs available after processing 19399314 (83.72%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 4 0.00% 19 3 0.00% 20 4 0.00% 21 0 0.00% 22 2 0.00% 23 3 0.00% 24 2 0.00% 25 0 0.00% 26 1 0.00% 27 0 0.00% 28 1 0.00% 29 0 0.00% 30 3 0.00% 31 3 0.00% 32 0 0.00% 33 0 0.00% 34 1 0.00% 35 3 0.00% 36 3 0.00% 37 2 0.00% 38 6 0.00% 39 4 0.00% 40 5 0.00% 41 7 0.00% 42 10 0.00% 43 11 0.00% 44 10 0.00% 45 15 0.00% 46 13 0.00% 47 13 0.00% 48 20 0.00% 49 27 0.00% 50 25 0.00% 51 31 0.00% 52 41 0.00% 53 52 0.00% 54 61 0.00% 55 65 0.00% 56 93 0.00% 57 86 0.00% 58 120 0.00% 59 129 0.00% 60 155 0.00% 61 200 0.00% 62 233 0.00% 63 218 0.00% 64 305 0.00% 65 340 0.00% 66 427 0.00% 67 471 0.00% 68 538 0.00% 69 650 0.00% 70 789 0.00% 71 926 0.00% 72 1101 0.00% 73 1313 0.01% 74 1512 0.01% 75 1724 0.01% 76 1896 0.01% 77 2190 0.01% 78 2434 0.01% 79 2866 0.01% 80 3343 0.01% 81 3889 0.02% 82 4388 0.02% 83 5003 0.02% 84 5879 0.03% 85 6525 0.03% 86 7129 0.03% 87 7917 0.03% 88 8557 0.04% 89 9319 0.04% 90 10427 0.05% 91 11766 0.05% 92 12947 0.06% 93 14435 0.06% 94 15808 0.07% 95 17327 0.07% 96 18459 0.08% 97 19791 0.09% 98 21329 0.09% 99 22283 0.10% 100 24074 0.10% 101 25348 0.11% 102 27714 0.12% 103 29802 0.13% 104 31585 0.14% 105 33364 0.14% 106 34987 0.15% 107 36342 0.16% 108 37808 0.16% 109 39512 0.17% 110 40971 0.18% 111 42343 0.18% 112 44770 0.19% 113 47292 0.20% 114 49421 0.21% 115 53048 0.23% 116 55928 0.24% 117 60087 0.26% 118 61475 0.27% 119 59368 0.26% 120 59313 0.26% 121 61624 0.27% 122 62503 0.27% 123 65157 0.28% 124 68232 0.29% 125 69958 0.30% 126 72547 0.31% 127 74007 0.32% 128 75320 0.33% 129 75999 0.33% 130 77355 0.33% 131 78524 0.34% 132 80597 0.35% 133 82819 0.36% 134 85374 0.37% 135 87621 0.38% 136 89504 0.39% 137 90938 0.39% 138 91222 0.39% 139 92923 0.40% 140 93661 0.40% 141 100858 0.44% 142 104285 0.45% 143 100121 0.43% 144 103537 0.45% 145 110043 0.47% 146 102578 0.44% 147 108240 0.47% 148 106464 0.46% 149 107505 0.46% 150 109822 0.47% 151 19399314 83.72% 23170892 reads passed initial QC criterion=sequence-density sequence-density=0.33 sequence-density-rank=1 fanout-score=3.52 fanout-score-rank=19 prefix-density=0.57 prefix-fanout=2.0 sequence=CACTTGCAGCCATTCTCAGCACCAGAGTTCATCTCAGACC criterion=fanout-score sequence-density=0.03 sequence-density-rank=29 fanout-score=111.33 fanout-score-rank=1 prefix-density=0.22 prefix-fanout=13.6 sequence=TCTCCTTCCTCTAAATGATAAGGTTCAGTGGACTTCTCGCGACGTCGCCGGCGGCGAACCGCCCACGTCGCCGCGATCCGAACACTTCACCGGACCATTCAATCGGTAGGAGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAGTCAACGCGAGCTGATGACTCGCGCTTACTAGGAATTCCTCGTTGAAGACCAACAATTGCAATGATCTATCCCCATCACGATGAAATTTCAAAGATTACCCGGGCCTGTCGGCCAAGGCTATAGACTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAAACTTCCTTGGCCTGGAAGGCCATAGTCCCTCTAAGAAGCTGGCCGCGGAGGGTCACCTCCGCATAGCTAGTTAGCAGGCTGAGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCGCTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAA criterion=sequence-density sequence-density=0.47 sequence-density-rank=1 fanout-score=2.62 fanout-score-rank=23 prefix-density=0.49 prefix-fanout=2.5 sequence=ATGTACCCTGACTT criterion=fanout-score sequence-density=0.01 sequence-density-rank=30 fanout-score=38.35 fanout-score-rank=1 prefix-density=0.10 prefix-fanout=4.3 sequence=AAGGAGTCTGACATGTGTGCGAGTCAACGGGCGAGTAAACCCGTAAGGCGCAAGGAAGCTGACTGGCGGGATCCCCTCGAGGGTTGCACCGCCGACCGACCTTGATCTTCTGAGAAGGGTTCGAGTGAGAGCATGCCTGTCGGGACCCGAAAGATGGTGAACTATGCCTGAGCGGGGCGAAGCCAGAGGAAACTCTGGTGGAGGCCCGCAGCGATACTGACGTGCAAATCGTTCGTCTGACTTGGGTATAGGGGCGAAAGACTAATCGAACCGTCTAGTAGCTGGTTCCCTCCGAAGTTTCCCTCAGGATAGCTGGAGCTCGGTGCGAGTTCTATCGGGTAAAGCCAATGATTAGAGGCATCGGGGGCGCAACGCCCTCGACCTATTCTCAAACTTTAAATAGGTAGGACGGCGCGGCTGCTTCGTTGAGCCGCGCCACGGAATCGAGAGCTCCAAGTGGGCCATTTTTGGTAAGCAGAACTGGCGATGCGGGATGAACCGGAAGCCGGGT SRR7171450 testing PE reads STAR mapping to Ensembl genome Started job on | Feb 14 08:42:31 Started mapping on | Feb 14 08:42:32 Finished on | Feb 14 08:47:09 Mapping speed, Million of reads per hour | 301.14 Number of input reads | 23170892 Average input read length | 294 UNIQUE READS: Uniquely mapped reads number | 21088665 Uniquely mapped reads % | 91.01% Average mapped length | 293.27 Number of splices: Total | 20902491 Number of splices: Annotated (sjdb) | 20550567 Number of splices: GT/AG | 20583352 Number of splices: GC/AG | 253240 Number of splices: AT/AC | 16302 Number of splices: Non-canonical | 49597 Mismatch rate per base, % | 0.42% Deletion rate per base | 0.03% Deletion average length | 2.57 Insertion rate per base | 0.02% Insertion average length | 2.62 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 631625 % of reads mapped to multiple loci | 2.73% Number of reads mapped to too many loci | 380540 % of reads mapped to too many loci | 1.64% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 4.25% % of reads unmapped: other | 0.37% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 1450603 1450603 1450603 N_multimapping 631625 631625 631625 N_noFeature 445507 20894252 518303 N_ambiguous 216850 1694 93939 UnstrandedReadsAssigned:20426308 PositiveStrandReadsAssigned:192719 NegativeStrandReadsAssigned:20476423 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=151 echo kmer=147 SRR7171450 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: SRR7171450-trimmed-pair1.fastq SRR7171450-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 23,170,892 reads, 20,840,155 reads pseudoaligned [quant] estimated average fragment length: 217.345 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,220 rounds 52401 SRR7171450.ke.tsv 34699 SRR7171450.se.tsv 87100 total ==> SRR7171450.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1801.65 1341 32.3909 Potri.005G024800.1.v4.1 1035 818.655 669 35.5624 Potri.004G059700.1.v4.1 961 744.655 124 7.24657 Potri.007G009000.2.v4.1 1416 1199.65 6 0.217651 Potri.003G141000.2.v4.1 2943 2726.65 534.258 8.52682 Potri.016G087400.1.v4.1 270 89.6056 1640.16 796.555 Potri.015G069301.1.v4.1 564 349.757 0 0 Potri.010G195200.1.v4.1 1773 1556.65 400 11.1824 Potri.012G127500.1.v4.1 977 760.655 3198 182.96 ==> SRR7171450.se.tsv <== Potri.001G166300.v4.1 1 Potri.001G448400.v4.1 31 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 597 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 3 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 2 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 558 SRR7171450 completed mapping pipeline successfully