Starting /dee2/code/volunteer_pipeline.sh SRR7472091 current disk space = 3088770670592 free memory = 1403570612 SRR7472091 SRAfilesize a4280e69f82433968b49614e71370251 SRR7472091.sra SRR7472091.sra file validated SRR7472091 is paired end SRR7472091 is conventional basespace SRR7472091 read1 length is 150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7472091_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 150 %GC 43 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 33.05825 34.0 33.0 34.0 33.0 34.0 2 33.45475 34.0 34.0 34.0 33.0 34.0 3 33.48625 34.0 34.0 34.0 33.0 34.0 4 33.562 34.0 34.0 34.0 33.0 34.0 5 33.488 34.0 34.0 34.0 33.0 34.0 6 37.2285 38.0 38.0 38.0 36.0 38.0 7 37.43175 38.0 38.0 38.0 37.0 38.0 8 37.52225 38.0 38.0 38.0 38.0 38.0 9 37.583 38.0 38.0 38.0 38.0 38.0 10-14 37.546200000000006 38.0 38.0 38.0 38.0 38.0 15-19 37.578050000000005 38.0 38.0 38.0 38.0 38.0 20-24 37.60015 38.0 38.0 38.0 38.0 38.0 25-29 37.54875 38.0 38.0 38.0 38.0 38.0 30-34 37.4681 38.0 38.0 38.0 38.0 38.0 35-39 37.467499999999994 38.0 38.0 38.0 38.0 38.0 40-44 37.3951 38.0 38.0 38.0 37.6 38.0 45-49 37.400549999999996 38.0 38.0 38.0 37.6 38.0 50-54 37.3694 38.0 38.0 38.0 37.4 38.0 55-59 37.29875 38.0 38.0 38.0 37.0 38.0 60-64 37.190999999999995 38.0 38.0 38.0 37.0 38.0 65-69 37.1816 38.0 38.0 38.0 37.0 38.0 70-74 37.05175 38.0 38.0 38.0 36.2 38.0 75-79 37.06825 38.0 38.0 38.0 36.4 38.0 80-84 37.01385 38.0 38.0 38.0 36.2 38.0 85-89 36.90044999999999 38.0 38.0 38.0 36.0 38.0 90-94 36.71055 38.0 38.0 38.0 35.4 38.0 95-99 36.49784999999999 38.0 38.0 38.0 34.4 38.0 100-104 36.578649999999996 38.0 38.0 38.0 34.8 38.0 105-109 36.58415 38.0 38.0 38.0 34.6 38.0 110-114 36.51035 38.0 38.0 38.0 34.4 38.0 115-119 36.3182 38.0 38.0 38.0 33.0 38.0 120-124 36.16955 38.0 38.0 38.0 33.0 38.0 125-129 35.692099999999996 38.0 37.4 38.0 30.8 38.0 130-134 35.45005 38.0 36.8 38.0 29.8 38.0 135-139 35.29975 38.0 36.4 38.0 29.4 38.0 140-144 34.793850000000006 38.0 36.0 38.0 28.0 38.0 145-149 34.1151 38.0 36.0 38.0 25.6 38.0 150 23.7565 29.0 2.0 38.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 3 1.0 4 0.0 5 0.0 6 0.0 7 2.0 8 1.0 9 1.0 10 1.0 11 2.0 12 0.0 13 0.0 14 1.0 15 2.0 16 3.0 17 3.0 18 5.0 19 6.0 20 3.0 21 12.0 22 4.0 23 6.0 24 5.0 25 4.0 26 17.0 27 16.0 28 24.0 29 28.0 30 29.0 31 39.0 32 48.0 33 82.0 34 115.0 35 187.0 36 516.0 37 2837.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 35.978701825557806 18.483772819472616 12.42393509127789 33.113590263691684 2 19.725 24.05 40.225 16.0 3 15.75 30.925000000000004 29.075 24.25 4 20.849999999999998 36.15 24.875 18.125 5 19.85 37.574999999999996 24.775 17.8 6 16.425 35.925000000000004 27.400000000000002 20.25 7 12.975 20.525 46.725 19.775000000000002 8 18.55 21.15 30.325000000000003 29.975 9 19.3 20.325 32.05 28.325 10-14 19.71 31.230000000000004 26.435 22.625 15-19 20.41 29.005 27.589999999999996 22.994999999999997 20-24 19.645000000000003 28.935 28.485 22.935 25-29 20.87 28.499999999999996 27.939999999999998 22.689999999999998 30-34 20.715 29.189999999999998 26.840000000000003 23.255 35-39 21.01 29.080000000000002 27.57 22.34 40-44 20.84 29.565 27.51 22.085 45-49 20.735 28.720000000000002 27.455000000000002 23.09 50-54 20.02 29.095 27.61 23.275000000000002 55-59 20.335 29.7 27.200000000000003 22.765 60-64 20.27 28.92 27.525 23.285 65-69 20.05 28.93 27.96 23.06 70-74 20.810000000000002 28.560000000000002 27.92 22.71 75-79 20.69 28.565 27.544999999999998 23.200000000000003 80-84 20.485 28.555000000000003 27.384999999999998 23.575 85-89 20.435 29.085 27.779999999999998 22.7 90-94 20.064999999999998 28.895 28.49 22.55 95-99 21.26 28.16 27.615000000000002 22.965 100-104 20.815 28.494999999999997 27.155 23.535 105-109 20.674999999999997 28.794999999999998 27.505000000000003 23.025000000000002 110-114 20.97 28.48 27.250000000000004 23.3 115-119 20.995 28.565 27.57 22.869999999999997 120-124 21.310000000000002 28.555000000000003 27.08 23.055 125-129 21.205 28.655 27.584999999999997 22.555 130-134 21.224999999999998 28.67 27.284999999999997 22.82 135-139 20.925 29.04 26.565 23.47 140-144 21.625 28.255000000000003 26.66 23.46 145-149 21.279999999999998 28.775000000000002 26.590000000000003 23.355 150 20.575 28.475 27.05 23.9 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.0 5 0.0 6 0.5 7 0.5 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 0.5 17 0.5 18 0.5 19 0.5 20 1.0 21 1.5 22 1.0 23 3.0 24 4.0 25 3.0 26 5.5 27 12.5 28 19.0 29 27.0 30 33.5 31 45.0 32 58.0 33 72.5 34 98.0 35 109.5 36 123.5 37 146.0 38 160.0 39 179.0 40 192.0 41 189.5 42 196.5 43 213.5 44 222.5 45 225.0 46 225.0 47 205.5 48 192.0 49 187.5 50 159.0 51 132.0 52 120.0 53 104.0 54 75.5 55 59.0 56 52.0 57 42.5 58 30.5 59 18.0 60 15.0 61 13.0 62 9.0 63 6.0 64 3.5 65 2.0 66 1.0 67 1.0 68 0.5 69 1.0 70 1.0 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 1.4000000000000001 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 0.0 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 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 150 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 94.575 #Duplication Level Percentage of deduplicated Percentage of total 1 96.85434840074015 91.60000000000001 2 1.929685434840074 3.65 3 0.63441712926249 1.7999999999999998 4 0.23790642347343377 0.8999999999999999 5 0.10573618821041501 0.5 6 0.10573618821041501 0.6 7 0.07930214115781126 0.525 8 0.026434047052603753 0.2 9 0.026434047052603753 0.22499999999999998 >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 TGGAACTCTACCAATTGGAGCTTTCTTAGCTGTCTTAGCAGTAGTTTATA 9 0.22499999999999998 No Hit GTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAAGCTATAC 8 0.2 No Hit ATTTTTAGTTATAATGATGCCTTATGTGATAGATGCCTCTTTAAAATATC 7 0.17500000000000002 No Hit TTTTTTTTGGATTTTTTCCGCTTTGATATTCTCTGCATCCTATTTAGGGC 7 0.17500000000000002 No Hit GCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAA 7 0.17500000000000002 No Hit GTGATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGA 6 0.15 No Hit GTTATGAGTAGGGATGAGCATAAACCAACAACTCTCAAAGAAGATGGGAA 6 0.15 No Hit GGAAGCTATACTATATAGGTGGCTATCTATCCCTACCAAGGCTTATATTG 6 0.15 No Hit GATAGATGCCTCTTTAAAATATCTAAGTGCTGGGGTTATGAGTAGGGATG 6 0.15 No Hit AAAATATCTAAGTGCTGGGGTTATGAGTAGGGATGAGCATAAACCAACAA 5 0.125 No Hit TTTTTTTTAAGGGTAAAACGCAAGCACCGGCTGTCGAGTTGTACGGCCGT 5 0.125 No Hit TTTTTTTGGATTTTTTCCGCTTTGATATTCTCTGCATCCTATTTAGGGCT 5 0.125 No Hit GGACAACTGATGGACCCACGTTGCGAGTCCAGTAAATCAGGACGGGGATA 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 0.0 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 0.0125 0.0 0.0 0.0 0.0 70-71 0.025 0.0 0.0 0.0 0.0 72-73 0.025 0.0 0.0 0.0 0.0 74-75 0.025 0.0 0.0 0.0 0.0 76-77 0.037500000000000006 0.0 0.0 0.0 0.0 78-79 0.1125 0.0 0.0 0.0 0.0 80-81 0.16249999999999998 0.0 0.0 0.0 0.0 82-83 0.175 0.0 0.0 0.0 0.0 84-85 0.175 0.0 0.0 0.0 0.0 86-87 0.23750000000000002 0.0 0.0 0.0 0.0 88-89 0.275 0.0 0.0 0.0 0.0 90-91 0.3 0.0 0.0 0.0 0.0 92-93 0.3875 0.0 0.0 0.0 0.0 94-95 0.4 0.0 0.0 0.0 0.0 96-97 0.475 0.0 0.0 0.0 0.0 98-99 0.475 0.0 0.0 0.0 0.0 100-101 0.6375 0.0 0.0 0.0 0.0 102-103 0.8 0.0 0.0 0.0 0.0 104-105 0.8625 0.0 0.0 0.0 0.0 106-107 0.975 0.0 0.0 0.0 0.0 108-109 1.1875 0.0 0.0 0.0 0.0 110-111 1.3875000000000002 0.0 0.0 0.0 0.0 112-113 1.55 0.0 0.0 0.0 0.0 114-115 1.875 0.0 0.0 0.0 0.0 116-117 2.05 0.0 0.0 0.0 0.0 118-119 2.2 0.0 0.0 0.0 0.0 120-121 2.4125 0.0 0.0 0.0 0.0 122-123 2.7 0.0 0.0 0.0 0.0 124-125 3.1375 0.0 0.0 0.0 0.0 126-127 3.5125 0.0 0.0 0.0 0.0 128-129 4.0625 0.0 0.0 0.0 0.0 130-131 4.5375 0.0 0.0 0.0 0.0 132-133 5.2875 0.0 0.0 0.0 0.0 134-135 5.9875 0.0 0.0 0.0 0.0 136-137 6.425 0.0 0.0 0.0 0.0 138 6.85 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position CTCCTGT 10 0.0069754543 143.9875 6 AGAAACC 10 0.0069754543 143.9875 8 TTTTTTT 55 2.7647242E-4 53.021862 1 >>END_MODULE SRR7472091 read2 length is 150 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR7472091_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 150 %GC 44 >>END_MODULE >>Per base sequence quality fail #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.46425 33.0 33.0 34.0 32.0 34.0 2 32.57725 33.0 33.0 34.0 32.0 34.0 3 32.61425 33.0 33.0 34.0 32.0 34.0 4 32.4935 33.0 33.0 34.0 32.0 34.0 5 32.3965 33.0 33.0 34.0 31.0 34.0 6 36.584 38.0 38.0 38.0 35.0 38.0 7 36.6295 38.0 38.0 38.0 35.0 38.0 8 36.73275 38.0 38.0 38.0 35.0 38.0 9 36.68625 38.0 38.0 38.0 35.0 38.0 10-14 36.60815 38.0 38.0 38.0 34.6 38.0 15-19 36.5468 38.0 38.0 38.0 34.4 38.0 20-24 36.433800000000005 38.0 38.0 38.0 34.0 38.0 25-29 36.386250000000004 38.0 38.0 38.0 34.0 38.0 30-34 36.32095 38.0 38.0 38.0 33.8 38.0 35-39 36.18945 38.0 38.0 38.0 33.6 38.0 40-44 36.02245 38.0 37.2 38.0 33.0 38.0 45-49 35.9602 38.0 37.0 38.0 32.4 38.0 50-54 35.828950000000006 38.0 37.0 38.0 31.0 38.0 55-59 35.618050000000004 38.0 36.8 38.0 29.4 38.0 60-64 35.55255 38.0 37.0 38.0 29.4 38.0 65-69 35.28395 38.0 36.2 38.0 28.8 38.0 70-74 35.11835 38.0 36.0 38.0 28.2 38.0 75-79 34.8551 38.0 36.0 38.0 27.4 38.0 80-84 34.735 38.0 35.8 38.0 26.6 38.0 85-89 34.4089 38.0 35.0 38.0 25.4 38.0 90-94 34.13525 38.0 34.2 38.0 23.6 38.0 95-99 33.75065 38.0 34.0 38.0 19.8 38.0 100-104 33.44215 38.0 34.0 38.0 15.0 38.0 105-109 33.052499999999995 37.6 33.4 38.0 15.0 38.0 110-114 32.4178 37.0 31.4 38.0 15.0 38.0 115-119 31.5545 36.8 28.8 38.0 15.0 38.0 120-124 30.77405 36.0 27.4 38.0 14.4 38.0 125-129 30.2151 35.4 26.4 38.0 13.8 38.0 130-134 29.16105 34.6 23.2 38.0 13.0 38.0 135-139 27.863100000000003 33.2 19.8 38.0 2.0 38.0 140-144 26.532600000000002 33.0 14.6 38.0 2.0 38.0 145-149 23.8672 31.2 6.4 37.4 2.0 38.0 150 17.11875 15.0 2.0 33.0 2.0 38.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 16.0 3 2.0 4 1.0 5 0.0 6 2.0 7 3.0 8 2.0 9 3.0 10 7.0 11 4.0 12 5.0 13 5.0 14 6.0 15 6.0 16 13.0 17 12.0 18 18.0 19 12.0 20 20.0 21 36.0 22 25.0 23 39.0 24 36.0 25 41.0 26 64.0 27 69.0 28 62.0 29 99.0 30 108.0 31 153.0 32 246.0 33 314.0 34 480.0 35 622.0 36 907.0 37 562.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 38.875 16.125 12.925 32.074999999999996 2 23.21383805465029 26.046628227625973 34.4447229882176 16.294810729506143 3 20.045158053186153 27.370797792272956 31.46011038635223 21.12393376818866 4 22.15253386853989 37.00451580531862 21.500250878073256 19.34269944806824 5 24.090338770388957 38.11794228356336 20.92848180677541 16.86323713927227 6 16.737659734402406 39.08794788273616 23.402655975945876 20.77173640691556 7 17.28890002505638 15.810573791029817 45.502380355800554 21.398145828113254 8 20.600750938673343 21.476846057571965 26.132665832290364 31.78973717146433 9 21.67376597344024 22.425457278877474 29.591581057379102 26.309195690303184 10-14 22.783541322106952 28.27644965669323 26.69773968826743 22.24226933293239 15-19 23.27236281633676 27.391631170132797 27.607116011024807 21.728890002505636 20-24 23.175621491579793 27.816760224538896 27.455894145950282 21.551724137931032 25-29 23.054957166474626 28.47051750914283 27.65893492310004 20.815590401282503 30-34 22.87290047630985 26.999247931812487 27.996991727249938 22.130859864627723 35-39 22.24506166649955 27.830141381730673 28.095858818810786 21.82893813295899 40-44 22.950819672131146 27.934025166691733 27.73349375845992 21.3816614027172 45-49 22.266780289738833 27.2895884505489 28.86861496816883 21.575016291543434 50-54 21.95439739413681 27.536958155850666 28.709596592332748 21.799047857679778 55-59 22.27400280617358 27.55061134495891 28.39747444377631 21.7779114050912 60-64 21.867950067679352 28.470446683711835 27.93903845189753 21.722564796711286 65-69 22.35252844183832 27.835413221069516 27.950684107652986 21.861374229439182 70-74 22.413793103448278 28.413191659983962 27.8869286287089 21.286086607858863 75-79 22.406015037593985 28.040100250626566 28.20050125313283 21.353383458646615 80-84 22.7008324140006 28.056363454016648 28.186741550496443 21.05606258148631 85-89 23.019057171514543 28.68104312938816 27.36208625877633 20.937813440320962 90-94 22.52143824281631 27.93240058171606 28.443909533122714 21.102251642344918 95-99 22.737306843267106 28.466787076058598 27.297812562713226 21.498093517961067 100-104 22.479687029792355 27.685826060788443 28.142240946935498 21.6922459624837 105-109 23.06150067665781 28.1489649641622 27.998596561575862 20.79093779760413 110-114 23.117039414301473 28.377294153043824 27.2389930799318 21.266673352722893 115-119 22.883776875657798 28.221320102240266 28.32155565579111 20.57334736631083 120-124 22.734108682574693 28.27351112893523 28.298576298375778 20.6938038901143 125-129 23.75532714966157 27.981950363499625 28.04211581850088 20.22060666833793 130-134 23.70359236434691 27.837065985269803 27.967333032717068 20.492008617666215 135-139 24.224349656658813 28.174026364593253 27.442233472006418 20.159390506741516 140-144 23.995787573341357 27.93240058171606 27.59640940775287 20.47540243718971 145-149 24.522628176214102 27.82538966571443 27.584824337192405 20.067157820879068 150 25.582560761713857 27.962916562265093 27.411676271611125 19.04284640440992 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 0.0 1 2.5 2 3.0 3 1.5 4 1.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.5 10 0.5 11 0.0 12 0.0 13 0.0 14 0.0 15 0.5 16 0.5 17 0.5 18 0.5 19 0.5 20 1.0 21 1.5 22 1.5 23 2.0 24 2.5 25 2.0 26 6.0 27 6.0 28 8.0 29 16.0 30 22.0 31 31.5 32 35.5 33 38.5 34 54.0 35 77.5 36 99.5 37 132.5 38 170.0 39 190.5 40 192.5 41 201.5 42 212.0 43 220.5 44 233.0 45 231.0 46 219.5 47 225.5 48 218.5 49 187.5 50 165.0 51 136.0 52 117.0 53 110.0 54 94.0 55 72.0 56 62.5 57 54.0 58 48.0 59 35.5 60 15.5 61 11.0 62 10.0 63 9.5 64 5.5 65 0.5 66 0.5 67 0.5 68 0.0 69 0.0 70 0.5 71 0.5 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 0.5 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 0.0 100 0.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.0 2 0.27499999999999997 3 0.35000000000000003 4 0.35000000000000003 5 0.375 6 0.22499999999999998 7 0.22499999999999998 8 0.125 9 0.22499999999999998 10-14 0.23500000000000001 15-19 0.22499999999999998 20-24 0.24 25-29 0.19499999999999998 30-34 0.27499999999999997 35-39 0.27 40-44 0.265 45-49 0.255 50-54 0.22499999999999998 55-59 0.22 60-64 0.265 65-69 0.23500000000000001 70-74 0.24 75-79 0.25 80-84 0.29 85-89 0.3 90-94 0.295 95-99 0.33999999999999997 100-104 0.31 105-109 0.245 110-114 0.29 115-119 0.23500000000000001 120-124 0.26 125-129 0.27499999999999997 130-134 0.20500000000000002 135-139 0.245 140-144 0.295 145-149 0.23500000000000001 150 0.22499999999999998 >>END_MODULE >>Sequence Length Distribution pass #Length Count 150 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 94.22500000000001 #Duplication Level Percentage of deduplicated Percentage of total 1 97.29371185990979 91.675 2 1.6449986733881667 3.1 3 0.5041124966834705 1.425 4 0.1857256566728575 0.7000000000000001 5 0.13266118333775537 0.625 6 0.02653223666755107 0.15 7 0.05306447333510214 0.35000000000000003 8 0.05306447333510214 0.4 9 0.02653223666755107 0.22499999999999998 >10 0.07959671000265323 1.35 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences warn #Sequence Count Percentage Possible Source GAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCC 32 0.8 No Hit CCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGT 11 0.27499999999999997 No Hit GGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCAAAACAATCAC 11 0.27499999999999997 No Hit TGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTC 9 0.22499999999999998 No Hit GTTGGTTTATGCTCATCCCTACTCATAACCCCAGCACTTAGATATTTTAA 8 0.2 No Hit GGAGTATTTGCACTTGTGGTAACGGTATTTGCATTATTGATGGTTTTTAC 8 0.2 No Hit GCTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCC 7 0.17500000000000002 No Hit CAATTATCCATAAAACTGTAACTAAGTGAGGCTCTCTCATTGGTTTATAC 7 0.17500000000000002 No Hit CTTCAATATAAGCCTTGGTAGGGATAGATAGCCACCTATATAGTATAGCT 6 0.15 No Hit CTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCTCCTATGGTTTTCA 5 0.125 No Hit CTGAAAGCCCTAACTTAATGGACGGGAGGTATCCCAATAGGAGGTTTCCT 5 0.125 No Hit CTCGTAACCAAACATGCACAGCGGTCAAACAGTATGTCCCAAGGGGACTT 5 0.125 No Hit GTTTATGCTCATCCCTACTCATAACCCCAGCACTTAGATATTTTAAAGAG 5 0.125 No Hit CTTGAGTGCATTCTTCTAAGTAAAAGAAATCCCTTAATTTCATCACACTT 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 0.0 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 0.0125 0.0 0.0 0.0 0.0 78-79 0.0875 0.0 0.0 0.0 0.0 80-81 0.1375 0.0 0.0 0.0 0.0 82-83 0.15 0.0 0.0 0.0 0.0 84-85 0.15 0.0 0.0 0.0 0.0 86-87 0.2125 0.0 0.0 0.0 0.0 88-89 0.25 0.0 0.0 0.0 0.0 90-91 0.275 0.0 0.0 0.0 0.0 92-93 0.3625 0.0 0.0 0.0 0.0 94-95 0.375 0.0 0.0 0.0 0.0 96-97 0.45 0.0 0.0 0.0 0.0 98-99 0.45 0.0 0.0 0.0 0.0 100-101 0.6125 0.0 0.0 0.0 0.0 102-103 0.7 0.0 0.0 0.0 0.0 104-105 0.7375 0.0 0.0 0.0 0.0 106-107 0.85 0.0 0.0 0.0 0.0 108-109 1.0625 0.0 0.0 0.0 0.0 110-111 1.2374999999999998 0.0 0.0 0.0 0.0 112-113 1.35 0.0 0.0 0.0 0.0 114-115 1.625 0.0 0.0 0.0 0.0 116-117 1.7374999999999998 0.0 0.0 0.0 0.0 118-119 1.875 0.0 0.0 0.0 0.0 120-121 2.0875 0.0 0.0 0.0 0.0 122-123 2.3499999999999996 0.0 0.0 0.0 0.0 124-125 2.7249999999999996 0.0 0.0 0.0 0.0 126-127 3.0125 0.0 0.0 0.0 0.0 128-129 3.45 0.0 0.0 0.0 0.0 130-131 3.775 0.0 0.0 0.0 0.0 132-133 4.3125 0.0 0.0 0.0 0.0 134-135 4.925 0.0 0.0 0.0 0.0 136-137 5.3125 0.0 0.0 0.0 0.0 138 5.6 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position TCAACTC 10 0.0069684666 144.01266 8 >>END_MODULE Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896814 spots for SRR7472091.sra Written 896814 spots for SRR7472091.sra Read 896821 spots for SRR7472091.sra Written 896821 spots for SRR7472091.sra SRR ids: ['SRR7472091.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_dlkvnn_8 SRR7472091.sra spots: 17936287 blocks: [[1, 896814], [896815, 1793628], [1793629, 2690442], [2690443, 3587256], [3587257, 4484070], [4484071, 5380884], [5380885, 6277698], [6277699, 7174512], [7174513, 8071326], [8071327, 8968140], [8968141, 9864954], [9864955, 10761768], [10761769, 11658582], [11658583, 12555396], [12555397, 13452210], [13452211, 14349024], [14349025, 15245838], [15245839, 16142652], [16142653, 17039466], [17039467, 17936287]] SRR7472091 file size 6021286 SRR7472091 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 SRR7472091 SRR7472091_1.fastq SRR7472091_2.fastq Input file: SRR7472091_1.fastq Paired file: SRR7472091_2.fastq trimmed: SRR7472091-trimmed-pair1.fastq, SRR7472091-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 17:59:45 2025 >> started Thu Feb 13 18:00:05 2025 >> done (19.568s) 17936287 read pairs processed; of these: 14013 ( 0.08%) short read pairs filtered out after trimming by size control 65978 ( 0.37%) empty read pairs filtered out after trimming by size control 17856296 (99.55%) read pairs available; of these: 8108900 (45.41%) trimmed read pairs available after processing 9747396 (54.59%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 6 0.00% 19 7 0.00% 20 4 0.00% 21 4 0.00% 22 5 0.00% 23 8 0.00% 24 11 0.00% 25 5 0.00% 26 3 0.00% 27 16 0.00% 28 13 0.00% 29 12 0.00% 30 10 0.00% 31 13 0.00% 32 16 0.00% 33 9 0.00% 34 6 0.00% 35 9 0.00% 36 11 0.00% 37 16 0.00% 38 19 0.00% 39 23 0.00% 40 27 0.00% 41 36 0.00% 42 28 0.00% 43 25 0.00% 44 46 0.00% 45 27 0.00% 46 49 0.00% 47 71 0.00% 48 52 0.00% 49 61 0.00% 50 54 0.00% 51 66 0.00% 52 91 0.00% 53 88 0.00% 54 111 0.00% 55 125 0.00% 56 108 0.00% 57 154 0.00% 58 159 0.00% 59 188 0.00% 60 213 0.00% 61 197 0.00% 62 222 0.00% 63 265 0.00% 64 278 0.00% 65 466 0.00% 66 435 0.00% 67 561 0.00% 68 952 0.01% 69 3107 0.02% 70 2134 0.01% 71 898 0.01% 72 927 0.01% 73 996 0.01% 74 1100 0.01% 75 1243 0.01% 76 1368 0.01% 77 1426 0.01% 78 1643 0.01% 79 1834 0.01% 80 2007 0.01% 81 2404 0.01% 82 2806 0.02% 83 3271 0.02% 84 4448 0.02% 85 4638 0.03% 86 5213 0.03% 87 5847 0.03% 88 6295 0.04% 89 7359 0.04% 90 7426 0.04% 91 7736 0.04% 92 8806 0.05% 93 9116 0.05% 94 9829 0.06% 95 10179 0.06% 96 11163 0.06% 97 11558 0.06% 98 12155 0.07% 99 12932 0.07% 100 13619 0.08% 101 14821 0.08% 102 15768 0.09% 103 17060 0.10% 104 18229 0.10% 105 19585 0.11% 106 20317 0.11% 107 21250 0.12% 108 22780 0.13% 109 22912 0.13% 110 23696 0.13% 111 24967 0.14% 112 27083 0.15% 113 30899 0.17% 114 29914 0.17% 115 31446 0.18% 116 32215 0.18% 117 33236 0.19% 118 34078 0.19% 119 34683 0.19% 120 36568 0.20% 121 38473 0.22% 122 40295 0.23% 123 42559 0.24% 124 43797 0.25% 125 45752 0.26% 126 47849 0.27% 127 48901 0.27% 128 50377 0.28% 129 53269 0.30% 130 55304 0.31% 131 57417 0.32% 132 60642 0.34% 133 64490 0.36% 134 67730 0.38% 135 70663 0.40% 136 75725 0.42% 137 78829 0.44% 138 84847 0.48% 139 90813 0.51% 140 97545 0.55% 141 107158 0.60% 142 120278 0.67% 143 132631 0.74% 144 154667 0.87% 145 188197 1.05% 146 250393 1.40% 147 371656 2.08% 148 728939 4.08% 149 4147333 23.23% 150 9747396 54.59% 17856296 reads passed initial QC criterion=sequence-density sequence-density=0.20 sequence-density-rank=1 fanout-score=9.49 fanout-score-rank=6 prefix-density=0.35 prefix-fanout=5.5 sequence=CCAGCAGTGTCCCAGCCGTAGTCACCAGGGAACTCACCAGTCAAGTAGGATGGGGGCTCACCAGAGAACGGGCCCAAGTATTTAACACGGTCTGGTCCGTACCATGGGCTCCCGGAGGGAACAGGCTTGGTGGTTTTCCTCATGGAGACACGGCCATTGCCCATGA criterion=fanout-score sequence-density=0.02 sequence-density-rank=37 fanout-score=143.28 fanout-score-rank=1 prefix-density=0.27 prefix-fanout=9.2 sequence=TCATCTCCAAAAACCCAATAAAAAAAGGAAAAGCAACGATCTTTTTGCCAGAGCCCAGGTACAATTTGAAC criterion=sequence-density sequence-density=0.20 sequence-density-rank=1 fanout-score=8.70 fanout-score-rank=13 prefix-density=0.39 prefix-fanout=4.5 sequence=CAATGGCAGCAGCAACAATGGCCCTCTC criterion=fanout-score sequence-density=0.01 sequence-density-rank=38 fanout-score=44.67 fanout-score-rank=1 prefix-density=0.07 prefix-fanout=5.8 sequence=CTGAGCTTGAGTGCATTCTTCTAAGTAAAAGAAATCCCTTAATTTCATCACACTTTCCTTCTTTTCCAACAGAAAATGTCTTGCTGTGGAGGAAACTGTGGCTGCGGCTCTGGATGCAAGTGCGGCAGTGGCTGCAATGGATGCAGCATGTACCCAGACTTGAGTTTCTCCGAGACCACCACAAGTCAGACAATCATTGCTGGTGTAGCTCCAGTTAGGATGTTCTACGAGAGCTCTGAGATGAACTTTGGTGCTGAGAATGGCTGCAAATGTGGATCAAACTGCACCTGTGATCCATGCTCCTGCAAATGAGAAAACGTCGCCGCATGGCTCCAACCAAGCAGTTTTATGGAACTATAATAAATAAAAAGAAG SRR7472091 testing PE reads STAR mapping to Ensembl genome Started job on | Feb 13 18:01:04 Started mapping on | Feb 13 18:01:04 Finished on | Feb 13 18:09:07 Mapping speed, Million of reads per hour | 133.09 Number of input reads | 17856296 Average input read length | 293 UNIQUE READS: Uniquely mapped reads number | 14267377 Uniquely mapped reads % | 79.90% Average mapped length | 292.64 Number of splices: Total | 12764637 Number of splices: Annotated (sjdb) | 12565590 Number of splices: GT/AG | 12508042 Number of splices: GC/AG | 218708 Number of splices: AT/AC | 9841 Number of splices: Non-canonical | 28046 Mismatch rate per base, % | 0.21% Deletion rate per base | 0.02% Deletion average length | 2.24 Insertion rate per base | 0.02% Insertion average length | 1.78 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 325028 % of reads mapped to multiple loci | 1.82% Number of reads mapped to too many loci | 33349 % of reads mapped to too many loci | 0.19% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 18.05% % of reads unmapped: other | 0.05% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 3277347 3277347 3277347 N_multimapping 325028 325028 325028 N_noFeature 410205 14089469 471550 N_ambiguous 203813 688 86858 UnstrandedReadsAssigned:13653359 PositiveStrandReadsAssigned:177220 NegativeStrandReadsAssigned:13708969 Dataset is classified negative stranded MeadianReadLen=150 20thPercentileLength=149 echo kmer=145 SRR7472091 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: SRR7472091-trimmed-pair1.fastq SRR7472091-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 17,856,296 reads, 13,860,940 reads pseudoaligned [quant] estimated average fragment length: 239.835 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,007 rounds 52401 SRR7472091.ke.tsv 34699 SRR7472091.se.tsv 87100 total ==> SRR7472091.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1779.17 335 12.1205 Potri.005G024800.1.v4.1 1035 796.165 215 17.3831 Potri.004G059700.1.v4.1 961 722.193 8 0.713066 Potri.007G009000.2.v4.1 1416 1177.17 0 0 Potri.003G141000.2.v4.1 2943 2704.17 303.163 7.21665 Potri.016G087400.1.v4.1 270 81.3997 668 528.258 Potri.015G069301.1.v4.1 564 330.111 0 0 Potri.010G195200.1.v4.1 1773 1534.17 6 0.251751 Potri.012G127500.1.v4.1 977 738.171 2334 203.534 ==> SRR7472091.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 189 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 248 Potri.001G212900.v4.1 51 Potri.001G182400.v4.1 1 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 193 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 4 SRR7472091 completed mapping pipeline successfully