Starting /dee2/code/volunteer_pipeline.sh SRR7170640 current disk space = 3090310987776 free memory = 1581596236 SRR7170640 SRAfilesize 4e64cc8fb26f568fef935b288d5b2b20 SRR7170640.sra SRR7170640.sra file validated SRR7170640 is paired end SRR7170640 is conventional basespace SRR7170640 read1 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7170640_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 43 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 26.92025 30.0 18.0 33.0 18.0 33.0 2 25.9815 28.0 18.0 31.0 18.0 33.0 3 29.40525 31.0 29.0 33.0 25.0 33.0 4 31.44 33.0 31.0 33.0 29.0 33.0 5 32.13225 33.0 33.0 33.0 31.0 33.0 6 36.58875 38.0 37.0 38.0 34.0 38.0 7 36.734 38.0 37.0 38.0 34.0 38.0 8 37.02725 38.0 38.0 38.0 35.0 38.0 9 37.36625 38.0 38.0 38.0 37.0 38.0 10-14 37.29594999999999 38.0 38.0 38.0 36.6 38.0 15-19 37.2654 38.0 38.0 38.0 37.0 38.0 20-24 37.3776 38.0 38.0 38.0 37.0 38.0 25-29 37.42735 38.0 38.0 38.0 37.6 38.0 30-34 37.352500000000006 38.0 38.0 38.0 37.2 38.0 35-39 37.35395 38.0 38.0 38.0 37.0 38.0 40-44 37.32965 38.0 38.0 38.0 37.0 38.0 45-49 37.26105 38.0 38.0 38.0 37.0 38.0 50-54 37.14525 38.0 38.0 38.0 36.4 38.0 55-59 37.106049999999996 38.0 38.0 38.0 36.0 38.0 60-64 37.047200000000004 38.0 38.0 38.0 36.0 38.0 65-69 37.024 38.0 38.0 38.0 36.0 38.0 70-74 36.84375 38.0 38.0 38.0 35.8 38.0 75-79 36.6765 38.0 38.0 38.0 35.2 38.0 80-84 36.504900000000006 38.0 38.0 38.0 34.2 38.0 85-89 36.46665 38.0 38.0 38.0 34.0 38.0 90-94 36.36065000000001 38.0 38.0 38.0 34.0 38.0 95-99 36.25655 38.0 37.8 38.0 34.0 38.0 100-104 36.0353 38.0 37.2 38.0 33.4 38.0 105-109 35.8979 38.0 37.0 38.0 33.0 38.0 110-114 35.73195 38.0 37.0 38.0 32.2 38.0 115-119 35.48695 38.0 36.2 38.0 31.0 38.0 120-124 35.3812 38.0 36.0 38.0 31.0 38.0 125-129 35.1811 38.0 35.8 38.0 29.8 38.0 130-134 34.853950000000005 38.0 35.4 38.0 27.8 38.0 135-139 34.6147 38.0 35.0 38.0 27.2 38.0 140-144 33.97645000000001 38.0 34.4 38.0 23.8 38.0 145-149 33.0873 38.0 33.2 38.0 19.4 38.0 150-151 28.03875 34.5 17.5 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 1.0 3 0.0 4 0.0 5 3.0 6 3.0 7 0.0 8 0.0 9 0.0 10 0.0 11 1.0 12 1.0 13 1.0 14 2.0 15 1.0 16 5.0 17 4.0 18 4.0 19 16.0 20 6.0 21 6.0 22 5.0 23 2.0 24 12.0 25 8.0 26 13.0 27 19.0 28 22.0 29 32.0 30 60.0 31 49.0 32 88.0 33 106.0 34 193.0 35 335.0 36 976.0 37 2026.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 37.899309992333244 18.374648607206748 13.646818297981088 30.07922310247892 2 20.724999999999998 21.625 36.525 21.125 3 16.05 29.625 30.599999999999998 23.724999999999998 4 19.6 34.775 25.35 20.275000000000002 5 19.654048633742793 35.3472048132364 25.921283529706695 19.077463023314113 6 17.1 36.25 24.825 21.825 7 12.174999999999999 21.55 45.35 20.925 8 16.025 23.549999999999997 28.675 31.75 9 16.775000000000002 24.6 29.95 28.675 10-14 19.015 31.16 26.305 23.52 15-19 19.25 29.549999999999997 27.68 23.52 20-24 19.3 29.75 27.474999999999998 23.474999999999998 25-29 19.11 29.225 27.88 23.785 30-34 18.96 29.720000000000002 27.76 23.56 35-39 19.765 29.95 27.0 23.285 40-44 19.485 29.965000000000003 26.669999999999998 23.880000000000003 45-49 19.695 29.09 27.32 23.895 50-54 19.545 28.915000000000003 27.805000000000003 23.735 55-59 18.975 28.51 28.15 24.365000000000002 60-64 19.305 28.549999999999997 28.615000000000002 23.53 65-69 19.515 28.84 27.97 23.674999999999997 70-74 19.37 29.195 27.22 24.215 75-79 19.495 29.25 27.295 23.96 80-84 19.915 28.389999999999997 27.925 23.77 85-89 19.79 28.444999999999997 27.51 24.255 90-94 19.805 29.189999999999998 27.355 23.65 95-99 19.295 29.020000000000003 27.644999999999996 24.04 100-104 20.06 27.98 27.855 24.104999999999997 105-109 20.585 28.505000000000003 27.1 23.810000000000002 110-114 19.625 28.73 27.310000000000002 24.335 115-119 20.5 28.470000000000002 26.889999999999997 24.14 120-124 19.75 28.925 27.339999999999996 23.985 125-129 19.93 28.62 27.295 24.154999999999998 130-134 21.145 28.395 26.705000000000002 23.755000000000003 135-139 20.349999999999998 27.915 27.565 24.169999999999998 140-144 20.7 28.03 26.924999999999997 24.345 145-149 20.435 28.294999999999998 26.740000000000002 24.529999999999998 150-151 20.587867417135712 28.142589118198874 26.79174484052533 24.47779862414009 >>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 1.5 6 1.5 7 0.0 8 0.5 9 1.0 10 0.5 11 0.5 12 0.5 13 0.5 14 0.5 15 0.0 16 0.5 17 0.5 18 0.5 19 0.5 20 2.0 21 2.0 22 2.0 23 4.5 24 6.5 25 8.5 26 9.0 27 12.0 28 19.5 29 26.0 30 37.5 31 51.0 32 58.5 33 68.0 34 84.0 35 105.0 36 118.0 37 133.5 38 158.0 39 159.0 40 165.5 41 203.5 42 222.0 43 227.5 44 229.5 45 226.0 46 218.5 47 206.5 48 202.0 49 190.0 50 167.0 51 127.0 52 98.5 53 96.0 54 86.0 55 74.0 56 58.0 57 41.0 58 29.5 59 20.0 60 14.5 61 9.5 62 5.5 63 2.0 64 2.0 65 1.5 66 1.0 67 1.0 68 0.5 69 0.0 70 0.0 71 0.0 72 0.0 73 0.0 74 0.0 75 0.0 76 0.0 77 0.0 78 0.0 79 0.0 80 0.0 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 2.175 2 0.0 3 0.0 4 0.0 5 0.27499999999999997 6 0.0 7 0.0 8 0.0 9 0.0 10-14 0.0 15-19 0.0 20-24 0.0 25-29 0.0 30-34 0.0 35-39 0.0 40-44 0.0 45-49 0.0 50-54 0.0 55-59 0.0 60-64 0.0 65-69 0.0 70-74 0.0 75-79 0.0 80-84 0.0 85-89 0.0 90-94 0.0 95-99 0.0 100-104 0.0 105-109 0.0 110-114 0.0 115-119 0.0 120-124 0.0 125-129 0.0 130-134 0.0 135-139 0.0 140-144 0.0 145-149 0.0 150-151 0.0625 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 97.225 #Duplication Level Percentage of deduplicated Percentage of total 1 98.30290563126768 95.575 2 1.2856775520699408 2.5 3 0.17999485728979173 0.525 4 0.07714065312419646 0.3 5 0.10285420416559526 0.5 6 0.025713551041398816 0.15 7 0.0 0.0 8 0.0 0.0 9 0.0 0.0 >10 0.025713551041398816 0.44999999999999996 >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 GATCGGAAGAGCACACGTCTGAACTCCAGTCACTCCGGAGAATCTCGTAT 18 0.44999999999999996 TruSeq Adapter, Index 6 (97% over 36bp) GGACACTTTTGTTTGTTCACTCCACACCCACAAGTACAGAAGAACACAGA 6 0.15 No Hit GCCCGATTCAGCATCCGAATCCAGAAGCTAAAAACAAAAACAAAGTAGAA 5 0.125 No Hit GTTTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTT 5 0.125 No Hit CCCAATCCCACATCAAACATGATAGTTGATGTGCTTGTTTAATGACCGCA 5 0.125 No Hit CGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCA 5 0.125 No Hit >>END_MODULE >>Adapter Content warn #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0125 0.0 0.0 0.0 0.0 64-65 0.025 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 0.05 0.0 0.0 0.0 0.0 76-77 0.0625 0.0 0.0 0.0 0.0 78-79 0.0875 0.0 0.0 0.0 0.0 80-81 0.125 0.0 0.0 0.0 0.0 82-83 0.1375 0.0 0.0 0.0 0.0 84-85 0.225 0.0 0.0 0.0 0.0 86-87 0.30000000000000004 0.0 0.0 0.0 0.0 88-89 0.3625 0.0 0.0 0.0 0.0 90-91 0.45 0.0 0.0 0.0 0.0 92-93 0.525 0.0 0.0 0.0 0.0 94-95 0.7125 0.0 0.0 0.0 0.0 96-97 0.8875 0.0 0.0 0.0 0.0 98-99 1.0 0.0 0.0 0.0 0.0 100-101 1.0875 0.0 0.0 0.0 0.0 102-103 1.1875 0.0 0.0 0.0 0.0 104-105 1.4125 0.0 0.0 0.0 0.0 106-107 1.55 0.0 0.0 0.0 0.0 108-109 1.8 0.0 0.0 0.0 0.0 110-111 1.9625 0.0 0.0 0.0 0.0 112-113 2.0875 0.0 0.0 0.0 0.0 114-115 2.375 0.0 0.0 0.0 0.0 116-117 2.6875 0.0 0.0 0.0 0.0 118-119 2.925 0.0 0.0 0.0 0.0 120-121 3.1875 0.0 0.0 0.0 0.0 122-123 3.4749999999999996 0.0 0.0 0.0 0.0 124-125 3.6500000000000004 0.0 0.0 0.0 0.0 126-127 3.9375 0.0 0.0 0.0 0.0 128-129 4.199999999999999 0.0 0.0 0.0 0.0 130-131 4.5 0.0 0.0 0.0 0.0 132-133 4.8125 0.0 0.0 0.0 0.0 134-135 5.275 0.0 0.0 0.0 0.0 136-137 5.65 0.0 0.0 0.0 0.0 138-139 6.025 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR7170640 read2 length is 151 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7170640_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 151 %GC 44 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.563 33.0 33.0 34.0 32.0 34.0 2 32.63075 33.0 33.0 34.0 32.0 34.0 3 32.7035 33.0 33.0 34.0 32.0 34.0 4 32.64075 33.0 33.0 34.0 32.0 34.0 5 32.6205 33.0 33.0 34.0 32.0 34.0 6 36.74625 38.0 38.0 38.0 36.0 38.0 7 36.87025 38.0 38.0 38.0 36.0 38.0 8 36.85725 38.0 38.0 38.0 36.0 38.0 9 36.815 38.0 38.0 38.0 36.0 38.0 10-14 36.8136 38.0 38.0 38.0 36.0 38.0 15-19 36.809799999999996 38.0 38.0 38.0 35.8 38.0 20-24 36.77885 38.0 38.0 38.0 36.0 38.0 25-29 36.653800000000004 38.0 38.0 38.0 35.4 38.0 30-34 36.60755 38.0 38.0 38.0 35.0 38.0 35-39 36.694300000000005 38.0 38.0 38.0 35.8 38.0 40-44 36.639399999999995 38.0 38.0 38.0 35.2 38.0 45-49 36.625 38.0 38.0 38.0 35.4 38.0 50-54 36.46585 38.0 38.0 38.0 34.8 38.0 55-59 36.4161 38.0 38.0 38.0 34.2 38.0 60-64 36.44595 38.0 38.0 38.0 34.6 38.0 65-69 36.388149999999996 38.0 38.0 38.0 34.2 38.0 70-74 36.33475 38.0 38.0 38.0 34.0 38.0 75-79 36.33675000000001 38.0 38.0 38.0 34.4 38.0 80-84 36.0944 38.0 38.0 38.0 34.0 38.0 85-89 35.98885 38.0 38.0 38.0 33.6 38.0 90-94 35.892050000000005 38.0 38.0 38.0 33.2 38.0 95-99 35.70735 38.0 37.4 38.0 32.2 38.0 100-104 35.536500000000004 38.0 37.0 38.0 31.2 38.0 105-109 35.4873 38.0 37.0 38.0 31.2 38.0 110-114 35.16275 38.0 36.6 38.0 29.0 38.0 115-119 34.71225 38.0 36.0 38.0 26.8 38.0 120-124 34.66435 38.0 36.0 38.0 27.2 38.0 125-129 34.39695 38.0 35.2 38.0 25.4 38.0 130-134 34.0705 38.0 34.2 38.0 24.0 38.0 135-139 33.61965 38.0 33.0 38.0 22.0 38.0 140-144 32.9846 38.0 33.0 38.0 17.0 38.0 145-149 32.033049999999996 38.0 33.0 38.0 10.4 38.0 150-151 26.752499999999998 34.0 16.5 37.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 11.0 3 8.0 4 3.0 5 1.0 6 6.0 7 1.0 8 2.0 9 0.0 10 3.0 11 7.0 12 6.0 13 6.0 14 5.0 15 5.0 16 6.0 17 8.0 18 8.0 19 19.0 20 8.0 21 9.0 22 17.0 23 11.0 24 14.0 25 18.0 26 25.0 27 34.0 28 30.0 29 32.0 30 51.0 31 53.0 32 90.0 33 115.0 34 166.0 35 292.0 36 693.0 37 2237.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 43.9 18.075 15.299999999999999 22.725 2 27.625 22.5 31.324999999999996 18.55 3 21.9 25.025 33.475 19.6 4 24.65 33.074999999999996 21.349999999999998 20.925 5 23.625 37.85 20.125 18.4 6 19.78984238178634 37.928446334751065 22.76707530647986 19.514635976982735 7 18.63431715857929 17.10855427713857 42.746373186593296 21.510755377688845 8 21.641230923192396 23.067300475356518 25.794345759319487 29.497122842131603 9 22.586293146573286 24.337168584292147 27.388694347173587 25.68784392196098 10-14 23.21044470011505 28.537842028913012 26.566955129808413 21.684758141163524 15-19 23.508227879757914 26.994448056819888 28.22487870754764 21.272445355874556 20-24 23.11540193086889 28.05762593166925 27.88754939722875 20.939422740233105 25-29 23.559423769507802 28.886554621848738 26.855742296918766 20.69827931172469 30-34 22.80526236806563 28.20269121104497 27.952578660397176 21.039467760492222 35-39 23.406703351675837 27.64382191095548 28.044022011005502 20.905452726363183 40-44 24.22817112834626 27.30047535651739 28.111083312484364 20.36027020265199 45-49 23.035365914661597 28.47781501675754 27.702466109749384 20.784352958831473 50-54 23.38052123455555 27.657445850632783 27.587414336451406 21.374618578360263 55-59 24.23711855927964 27.46873436718359 27.70385192596298 20.590295147573787 60-64 23.56178089044522 27.49374687343672 27.54377188594297 21.400700350175086 65-69 24.12344320512179 27.289551342970043 27.684689641374483 20.902315810533686 70-74 23.444688937787557 27.615523104620927 27.81056211242248 21.129225845169035 75-79 23.87574408483818 27.927567405332397 27.372317542894304 20.82437096693512 80-84 23.48087021755439 28.532133033258315 27.56689172293073 20.420105026256564 85-89 23.9221766529959 28.078423527058117 27.34320296088827 20.65619685905772 90-94 23.9247849569914 28.255651130226045 27.265453090618124 20.554110822164436 95-99 24.317431743174318 27.147714771477148 27.797779777977798 20.737073707370737 100-104 24.658698804820723 27.804170625593837 27.509126368955343 20.028004200630097 105-109 24.228479967988797 27.99479817936278 27.3445705997099 20.432151252938528 110-114 24.019411646988193 28.552131278767263 27.581548929357613 19.846908144886932 115-119 24.731129008053625 27.597418838477317 27.527387324295933 20.14406482917313 120-124 24.4161040260065 28.212053013253314 27.246811702925733 20.125031257814456 125-129 24.588606012104236 27.499624868704046 28.18486470264593 19.72690441654579 130-134 24.801200300075017 27.861965491372843 27.9869967491873 19.349837459364842 135-139 24.33216608304152 27.68384192096048 28.064032016008007 19.919959979989997 140-144 24.957478739369684 28.484242121060532 26.753376688344172 19.80490245122561 145-149 25.261263063153155 28.39641982099105 26.906345317265863 19.43597179858993 150-151 25.825 27.9375 27.250000000000004 18.987499999999997 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 1.0 1 0.5 2 0.0 3 0.0 4 0.0 5 0.0 6 1.0 7 1.5 8 0.5 9 0.0 10 0.0 11 0.5 12 1.0 13 0.5 14 0.0 15 0.5 16 1.5 17 2.0 18 1.5 19 1.5 20 1.5 21 1.0 22 0.5 23 0.5 24 2.5 25 6.0 26 5.0 27 4.5 28 6.0 29 11.5 30 15.0 31 18.0 32 28.0 33 30.0 34 45.0 35 64.5 36 77.5 37 99.5 38 126.0 39 145.0 40 168.5 41 204.0 42 221.5 43 232.5 44 253.5 45 272.0 46 281.5 47 258.5 48 216.5 49 200.5 50 198.0 51 159.0 52 120.0 53 111.0 54 92.5 55 78.5 56 66.0 57 47.5 58 29.5 59 24.5 60 22.5 61 15.0 62 12.0 63 7.5 64 4.0 65 1.5 66 0.5 67 0.0 68 0.0 69 0.0 70 0.0 71 0.0 72 0.5 73 0.5 74 0.0 75 0.0 76 0.0 77 0.0 78 0.0 79 0.0 80 0.0 81 0.0 82 0.0 83 0.0 84 0.0 85 0.0 86 0.0 87 0.0 88 0.0 89 0.0 90 0.0 91 0.0 92 0.0 93 0.0 94 0.0 95 0.0 96 0.0 97 0.0 98 0.0 99 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.075 7 0.05 8 0.075 9 0.05 10-14 0.045 15-19 0.034999999999999996 20-24 0.045 25-29 0.04 30-34 0.045 35-39 0.05 40-44 0.075 45-49 0.045 50-54 0.045 55-59 0.05 60-64 0.05 65-69 0.034999999999999996 70-74 0.02 75-79 0.045 80-84 0.025 85-89 0.03 90-94 0.02 95-99 0.01 100-104 0.015 105-109 0.034999999999999996 110-114 0.06 115-119 0.045 120-124 0.025 125-129 0.034999999999999996 130-134 0.025 135-139 0.05 140-144 0.05 145-149 0.005 150-151 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 151 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 96.55 #Duplication Level Percentage of deduplicated Percentage of total 1 98.00621439668565 94.625 2 1.3723459347488347 2.65 3 0.33661315380631796 0.975 4 0.07767995857068877 0.3 5 0.07767995857068877 0.375 6 0.07767995857068877 0.44999999999999996 7 0.02589331952356292 0.17500000000000002 8 0.0 0.0 9 0.0 0.0 >10 0.02589331952356292 0.44999999999999996 >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 GATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGGATAGGGTGTAGATCT 18 0.44999999999999996 Illumina Single End PCR Primer 1 (97% over 34bp) ATTCATACCCCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATCAAT 7 0.17500000000000002 No Hit CTCAGATTGAACGCTGGCGGCAGGCCTAACACATGCAAGTCGAACGGTAA 6 0.15 No Hit GGCAAGTGCAACTGCGGTACTGGCTGCACTTGCACTACCTGCACATGCGG 6 0.15 No Hit CATTCATACCCCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATCAA 6 0.15 No Hit CCCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATCAATCATCATGT 5 0.125 No Hit CATACTCCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATCAATCAT 5 0.125 No Hit CACATTCATACCCCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATC 5 0.125 No Hit >>END_MODULE >>Adapter Content warn #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10-11 0.0 0.0 0.0 0.0 0.0 12-13 0.0 0.0 0.0 0.0 0.0 14-15 0.0 0.0 0.0 0.0 0.0 16-17 0.0 0.0 0.0 0.0 0.0 18-19 0.0 0.0 0.0 0.0 0.0 20-21 0.0 0.0 0.0 0.0 0.0 22-23 0.0 0.0 0.0 0.0 0.0 24-25 0.0 0.0 0.0 0.0 0.0 26-27 0.0 0.0 0.0 0.0 0.0 28-29 0.0 0.0 0.0 0.0 0.0 30-31 0.0 0.0 0.0 0.0 0.0 32-33 0.0 0.0 0.0 0.0 0.0 34-35 0.0 0.0 0.0 0.0 0.0 36-37 0.0 0.0 0.0 0.0 0.0 38-39 0.0 0.0 0.0 0.0 0.0 40-41 0.0 0.0 0.0 0.0 0.0 42-43 0.0 0.0 0.0 0.0 0.0 44-45 0.0 0.0 0.0 0.0 0.0 46-47 0.0 0.0 0.0 0.0 0.0 48-49 0.0 0.0 0.0 0.0 0.0 50-51 0.0 0.0 0.0 0.0 0.0 52-53 0.0 0.0 0.0 0.0 0.0 54-55 0.0 0.0 0.0 0.0 0.0 56-57 0.0 0.0 0.0 0.0 0.0 58-59 0.0 0.0 0.0 0.0 0.0 60-61 0.0 0.0 0.0 0.0 0.0 62-63 0.0125 0.0 0.0 0.0 0.0 64-65 0.025 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 0.05 0.0 0.0 0.0 0.0 76-77 0.0625 0.0 0.0 0.0 0.0 78-79 0.0875 0.0 0.0 0.0 0.0 80-81 0.125 0.0 0.0 0.0 0.0 82-83 0.125 0.0 0.0 0.0 0.0 84-85 0.15 0.0 0.0 0.0 0.0 86-87 0.225 0.0 0.0 0.0 0.0 88-89 0.275 0.0 0.0 0.0 0.0 90-91 0.3625 0.0 0.0 0.0 0.0 92-93 0.44999999999999996 0.0 0.0 0.0 0.0 94-95 0.6625 0.0 0.0 0.0 0.0 96-97 0.8375 0.0 0.0 0.0 0.0 98-99 0.975 0.0 0.0 0.0 0.0 100-101 1.0625 0.0 0.0 0.0 0.0 102-103 1.1625 0.0 0.0 0.0 0.0 104-105 1.3875 0.0 0.0 0.0 0.0 106-107 1.5375 0.0 0.0 0.0 0.0 108-109 1.7875 0.0 0.0 0.0 0.0 110-111 1.9375 0.0 0.0 0.0 0.0 112-113 2.0625 0.0 0.0 0.0 0.0 114-115 2.35 0.0 0.0 0.0 0.0 116-117 2.675 0.0 0.0 0.0 0.0 118-119 2.9000000000000004 0.0 0.0 0.0 0.0 120-121 3.1875 0.0 0.0 0.0 0.0 122-123 3.4749999999999996 0.0 0.0 0.0 0.0 124-125 3.6500000000000004 0.0 0.0 0.0 0.0 126-127 3.925 0.0 0.0 0.0 0.0 128-129 4.2125 0.0 0.0 0.0 0.0 130-131 4.512499999999999 0.0 0.0 0.0 0.0 132-133 4.8125 0.0 0.0 0.0 0.0 134-135 5.2 0.0 0.0 0.0 0.0 136-137 5.5375 0.0 0.0 0.0 0.0 138-139 5.9375 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra Read 768740 spots for SRR7170640.sra Written 768740 spots for SRR7170640.sra Read 768739 spots for SRR7170640.sra Written 768739 spots for SRR7170640.sra SRR ids: ['SRR7170640.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_he3s3861 SRR7170640.sra spots: 15374781 blocks: [[1, 768739], [768740, 1537478], [1537479, 2306217], [2306218, 3074956], [3074957, 3843695], [3843696, 4612434], [4612435, 5381173], [5381174, 6149912], [6149913, 6918651], [6918652, 7687390], [7687391, 8456129], [8456130, 9224868], [9224869, 9993607], [9993608, 10762346], [10762347, 11531085], [11531086, 12299824], [12299825, 13068563], [13068564, 13837302], [13837303, 14606041], [14606042, 15374781]] SRR7170640 file size 5188308 SRR7170640 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 SRR7170640 SRR7170640_1.fastq SRR7170640_2.fastq Input file: SRR7170640_1.fastq Paired file: SRR7170640_2.fastq trimmed: SRR7170640-trimmed-pair1.fastq, SRR7170640-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 Thu Feb 13 13:56:06 2025 >> started Thu Feb 13 13:56:22 2025 >> done (16.696s) 15374781 read pairs processed; of these: 31611 ( 0.21%) short read pairs filtered out after trimming by size control 102771 ( 0.67%) empty read pairs filtered out after trimming by size control 15240399 (99.13%) read pairs available; of these: 7986269 (52.40%) trimmed read pairs available after processing 7254130 (47.60%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 7 0.00% 19 19 0.00% 20 19 0.00% 21 28 0.00% 22 38 0.00% 23 26 0.00% 24 32 0.00% 25 36 0.00% 26 39 0.00% 27 33 0.00% 28 38 0.00% 29 40 0.00% 30 27 0.00% 31 23 0.00% 32 22 0.00% 33 30 0.00% 34 24 0.00% 35 25 0.00% 36 36 0.00% 37 31 0.00% 38 48 0.00% 39 24 0.00% 40 43 0.00% 41 38 0.00% 42 46 0.00% 43 51 0.00% 44 64 0.00% 45 57 0.00% 46 90 0.00% 47 98 0.00% 48 130 0.00% 49 124 0.00% 50 127 0.00% 51 176 0.00% 52 169 0.00% 53 172 0.00% 54 183 0.00% 55 230 0.00% 56 208 0.00% 57 263 0.00% 58 270 0.00% 59 297 0.00% 60 350 0.00% 61 392 0.00% 62 447 0.00% 63 462 0.00% 64 530 0.00% 65 598 0.00% 66 601 0.00% 67 682 0.00% 68 733 0.00% 69 902 0.01% 70 989 0.01% 71 1067 0.01% 72 1330 0.01% 73 1412 0.01% 74 1602 0.01% 75 1994 0.01% 76 3175 0.02% 77 2878 0.02% 78 2270 0.01% 79 2655 0.02% 80 2786 0.02% 81 3309 0.02% 82 3681 0.02% 83 4250 0.03% 84 6277 0.04% 85 7116 0.05% 86 7861 0.05% 87 7943 0.05% 88 8004 0.05% 89 8385 0.06% 90 8612 0.06% 91 8911 0.06% 92 9588 0.06% 93 10142 0.07% 94 10473 0.07% 95 11237 0.07% 96 11531 0.08% 97 11907 0.08% 98 12262 0.08% 99 12756 0.08% 100 13686 0.09% 101 14558 0.10% 102 15458 0.10% 103 16051 0.11% 104 16949 0.11% 105 17671 0.12% 106 18380 0.12% 107 18478 0.12% 108 19191 0.13% 109 20027 0.13% 110 20735 0.14% 111 21625 0.14% 112 22863 0.15% 113 24265 0.16% 114 25155 0.17% 115 25812 0.17% 116 25979 0.17% 117 26671 0.18% 118 27695 0.18% 119 28211 0.19% 120 28737 0.19% 121 29879 0.20% 122 30668 0.20% 123 32967 0.22% 124 34488 0.23% 125 34941 0.23% 126 36547 0.24% 127 37470 0.25% 128 39169 0.26% 129 40436 0.27% 130 42321 0.28% 131 44330 0.29% 132 46568 0.31% 133 49441 0.32% 134 52400 0.34% 135 56181 0.37% 136 59690 0.39% 137 63945 0.42% 138 68565 0.45% 139 74743 0.49% 140 81284 0.53% 141 92425 0.61% 142 103779 0.68% 143 119242 0.78% 144 136536 0.90% 145 168775 1.11% 146 214081 1.40% 147 302042 1.98% 148 450250 2.95% 149 867405 5.69% 150 3931923 25.80% 151 7254130 47.60% 15240399 reads passed initial QC criterion=sequence-density sequence-density=2.45 sequence-density-rank=1 fanout-score=2.01 fanout-score-rank=21 prefix-density=2.24 prefix-fanout=2.0 sequence=TTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGACTACGGAGGAGACATAGTTCTTCTCAGTCTCGACGATGCCAGCAGTGTAGCTGCTTCCCTTCTTGACACACTGGGTCTTGTCAGCGCAGTCGCAGGTGTCGCAGGTGCTAGACATGATGATTGATTGATTAAGCTTAAATGGATGAACTAAAAGACTTGG criterion=fanout-score sequence-density=0.04 sequence-density-rank=27 fanout-score=21.73 fanout-score-rank=1 prefix-density=0.15 prefix-fanout=6.2 sequence=AATGAAGAAGACACAAAGATAAAGACACTCACGGACACTTTTGTTTGTTCACTCCACACCCACAAGTACAGAAGAACACAGATTATTTATCAGAAATTACATTATTAATCCACTCCCAATCCCACATCAAACATGATAGTTGATGTGCTTG criterion=sequence-density sequence-density=1.60 sequence-density-rank=1 fanout-score=2.15 fanout-score-rank=17 prefix-density=1.46 prefix-fanout=2.1 sequence=CCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATCAATCATCATGTCTAGCACCTGCGACACCTGCGACTGCGCTGACAAGACCCAGTGTGTCAAGAAGGGAAGCAGCTACACTGCTGGCATCGTCGAGACTGAGAAGAACTATGTCTCCTCCGTAGTCATGGAGGTGCCAGCAGCTGAGAACGATGGCAAGTGCAACTGCGGTACTGGCTGCACTTGCACTACCTGCACATGCGGTCATTAA criterion=fanout-score sequence-density=0.02 sequence-density-rank=25 fanout-score=33.66 fanout-score-rank=1 prefix-density=0.10 prefix-fanout=5.5 sequence=CTGAGCTTGAGTGCATTCTTCTAAGTAAAAGAAATCCCTTAATTTCATCAC Potential 3prime adapter identified. Now checking if in reference sequence /dee2/code/volunteer_pipeline.sh: line 905: -f: command not found /dee2/code/volunteer_pipeline.sh: line 906: -f: command not found Adapter seq not found in reference. Now shuffling file before clipping skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -t 20 -x TTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGACTACGGAGGAGACATAGTTCTTCTCAGTCTCGACGATGCCAGCAGTGTAGCTGCTTCCCTTCTTGACACACTGGGTCTTGTCAGCGCAGTCGCAGGTGTCGCAGGTGCTAGACATGATGATTGATTGATTAAGCTTAAATGGATGAACTAAAAGACTTGG -y CCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATCAATCATCATGTCTAGCACCTGCGACACCTGCGACTGCGCTGACAAGACCCAGTGTGTCAAGAAGGGAAGCAGCTACACTGCTGGCATCGTCGAGACTGAGAAGAACTATGTCTCCTCCGTAGTCATGGAGGTGCCAGCAGCTGAGAACGATGGCAAGTGCAACTGCGGTACTGGCTGCACTTGCACTACCTGCACATGCGGTCATTAA -o SRR7170640 SRR7170640_1.fastq SRR7170640_2.fastq Input file: SRR7170640_1.fastq Paired file: SRR7170640_2.fastq trimmed: SRR7170640-trimmed-pair1.fastq, SRR7170640-trimmed-pair2.fastq Parameters used: -- 3' end adapter sequence (-x): TTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTC -- paired 3' end adapter sequence (-y): CCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATCAATCATCATGTCTAGCACCTGCGACA -- maximum error ratio allowed (-r): 0.100 -- maximum indel error ratio allowed (-d): 0.030 -- minimum read length allowed after trimming (-l): 18 -- file format (-f): Sanger/Illumina 1.8+ FASTQ -- number of concurrent threads (-t): 20 Thu Feb 13 13:57:46 2025 >> started Thu Feb 13 13:57:52 2025 >> done (6.384s) 5080133 read pairs processed; of these: 2357 ( 0.05%) short read pairs filtered out after trimming by size control 6945 ( 0.14%) empty read pairs filtered out after trimming by size control 5070831 (99.82%) read pairs available; of these: 1230 ( 0.02%) trimmed read pairs available after processing 5069601 (99.98%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 17 0.00% 19 21 0.00% 20 26 0.00% 21 17 0.00% 22 31 0.00% 23 28 0.00% 24 20 0.00% 25 35 0.00% 26 23 0.00% 27 25 0.00% 28 13 0.00% 29 26 0.00% 30 15 0.00% 31 18 0.00% 32 10 0.00% 33 17 0.00% 34 14 0.00% 35 10 0.00% 36 11 0.00% 37 15 0.00% 38 19 0.00% 39 14 0.00% 40 12 0.00% 41 17 0.00% 42 16 0.00% 43 16 0.00% 44 16 0.00% 45 22 0.00% 46 39 0.00% 47 32 0.00% 48 35 0.00% 49 36 0.00% 50 52 0.00% 51 60 0.00% 52 52 0.00% 53 51 0.00% 54 52 0.00% 55 59 0.00% 56 66 0.00% 57 78 0.00% 58 91 0.00% 59 102 0.00% 60 109 0.00% 61 138 0.00% 62 147 0.00% 63 161 0.00% 64 189 0.00% 65 216 0.00% 66 197 0.00% 67 233 0.00% 68 234 0.00% 69 280 0.01% 70 320 0.01% 71 356 0.01% 72 447 0.01% 73 446 0.01% 74 559 0.01% 75 649 0.01% 76 1093 0.02% 77 951 0.02% 78 715 0.01% 79 894 0.02% 80 937 0.02% 81 1081 0.02% 82 1207 0.02% 83 1393 0.03% 84 2092 0.04% 85 2321 0.05% 86 2618 0.05% 87 2570 0.05% 88 2682 0.05% 89 2841 0.06% 90 2824 0.06% 91 3001 0.06% 92 3215 0.06% 93 3330 0.07% 94 3436 0.07% 95 3808 0.08% 96 3833 0.08% 97 4070 0.08% 98 4000 0.08% 99 4270 0.08% 100 4623 0.09% 101 4849 0.10% 102 5146 0.10% 103 5393 0.11% 104 5633 0.11% 105 5942 0.12% 106 6129 0.12% 107 6192 0.12% 108 6310 0.12% 109 6686 0.13% 110 6908 0.14% 111 7106 0.14% 112 7654 0.15% 113 8076 0.16% 114 8310 0.16% 115 8605 0.17% 116 8633 0.17% 117 8881 0.18% 118 9147 0.18% 119 9222 0.18% 120 9558 0.19% 121 9987 0.20% 122 10350 0.20% 123 11037 0.22% 124 11327 0.22% 125 11563 0.23% 126 12037 0.24% 127 12491 0.25% 128 13140 0.26% 129 13410 0.26% 130 13989 0.28% 131 14762 0.29% 132 15337 0.30% 133 16511 0.33% 134 17375 0.34% 135 18475 0.36% 136 19895 0.39% 137 21323 0.42% 138 22708 0.45% 139 24864 0.49% 140 27154 0.54% 141 30955 0.61% 142 34469 0.68% 143 39861 0.79% 144 45568 0.90% 145 56382 1.11% 146 71552 1.41% 147 100672 1.99% 148 149936 2.96% 149 288923 5.70% 150 1308408 25.80% 151 2412175 47.57% criterion=sequence-density sequence-density=2.39 sequence-density-rank=1 fanout-score=2.01 fanout-score-rank=23 prefix-density=2.23 prefix-fanout=2.0 sequence=TTAATGACCGCATGTGCAGGTAGTGCAAGTGCAGCCAGTACCGCAGTTGCACTTGCCATCGTTCTCAGCTGCTGGCACCTCCATGACTACGGAGGAGACATAGTTCTTCTCAGTCTCGACGATGCCAGCAGTGTAGCTGCTTCCCTTCTTGACACACTGGGTCTTGTCAGCGCAGTCGCAGGTGTCGCAGGTGCTAGACATGATGATTGATTGATTAAGCTTAAATGGATGAACTAAAAGACTTGG criterion=fanout-score sequence-density=0.04 sequence-density-rank=29 fanout-score=20.70 fanout-score-rank=1 prefix-density=0.15 prefix-fanout=5.9 sequence=AATGAAGAAGACACAAAGATAAAGACACTCACGGACACTTTTGTTTGTTCACTCCACACCCACAAGTACAGAAGAACACAGATTATTTATCAGAAATTACATTATTAATCCACTCCCAATCCCACATCAAACATGATAGTTGATGTGCTTG criterion=sequence-density sequence-density=1.53 sequence-density-rank=1 fanout-score=2.16 fanout-score-rank=16 prefix-density=1.45 prefix-fanout=2.2 sequence=CCAAGTCTTTTAGTTCATCCATTTAAGCTTAATCAATCAATCATCATGTCTAGCACCTGCGACACCTGCGACTGCGCTGACAAGACCCAGTGTGTCAAGAAGGGAAGCAGCTACACTGCTGGCATCGTCGAGACTGAGAAGAACTATGTCTCCTCCGTAGTCATGGAGGTGCCAGCAGCTGAGAACGATGGCAAGTGCAACTGCGGTACTGGCTGCACTTGCACTACCTGCACATGCGGTCATTAA criterion=fanout-score sequence-density=0.02 sequence-density-rank=26 fanout-score=29.11 fanout-score-rank=1 prefix-density=0.10 prefix-fanout=5.5 sequence=CTGAGCTTGAGTGCATTCTTCTAAGTAAAAGAAATCCCTTAATTTCATCAC SRR7170640 testing PE reads STAR mapping to Ensembl genome Started job on | Feb 13 13:58:55 Started mapping on | Feb 13 13:58:55 Finished on | Feb 13 14:00:59 Mapping speed, Million of reads per hour | 442.19 Number of input reads | 15231097 Average input read length | 294 UNIQUE READS: Uniquely mapped reads number | 14033685 Uniquely mapped reads % | 92.14% Average mapped length | 293.49 Number of splices: Total | 13365325 Number of splices: Annotated (sjdb) | 13085962 Number of splices: GT/AG | 13100285 Number of splices: GC/AG | 211705 Number of splices: AT/AC | 11129 Number of splices: Non-canonical | 42206 Mismatch rate per base, % | 0.39% Deletion rate per base | 0.03% Deletion average length | 2.58 Insertion rate per base | 0.02% Insertion average length | 1.99 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 374846 % of reads mapped to multiple loci | 2.46% Number of reads mapped to too many loci | 23846 % of reads mapped to too many loci | 0.16% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 5.17% % of reads unmapped: other | 0.07% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 851110 851110 851110 N_multimapping 374846 374846 374846 N_noFeature 419487 13519588 504168 N_ambiguous 544978 900 115250 UnstrandedReadsAssigned:13069220 PositiveStrandReadsAssigned:513197 NegativeStrandReadsAssigned:13414267 Dataset is classified negative stranded MeadianReadLen=151 20thPercentileLength=150 echo kmer=145 SRR7170640 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: SRR7170640-trimmed-pair1.fastq SRR7170640-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 15,231,097 reads, 13,184,797 reads pseudoaligned [quant] estimated average fragment length: 254.212 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,273 rounds 52401 SRR7170640.ke.tsv 34699 SRR7170640.se.tsv 87100 total ==> SRR7170640.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1764.79 347 8.2995 Potri.005G024800.1.v4.1 1035 781.788 473 25.538 Potri.004G059700.1.v4.1 961 707.81 20 1.19269 Potri.007G009000.2.v4.1 1416 1162.79 0 0 Potri.003G141000.2.v4.1 2943 2689.79 678.559 10.6484 Potri.016G087400.1.v4.1 270 76.8156 686 376.955 Potri.015G069301.1.v4.1 564 316.135 0 0 Potri.010G195200.1.v4.1 1773 1519.79 48 1.33313 Potri.012G127500.1.v4.1 977 723.81 101 5.88996 ==> SRR7170640.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 356 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 401 Potri.001G212900.v4.1 139 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 22 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 1 SRR7170640 completed mapping pipeline successfully