Starting /dee2/code/volunteer_pipeline.sh SRR10225144 current disk space = 3052311588864 free memory = 1438154340 SRR10225144 SRAfilesize ae2812c24be4a28f2c1837b1809779ab SRR10225144.sra SRR10225144.sra file validated SRR10225144 is paired end SRR10225144 is conventional basespace SRR10225144 read1 length is 100 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR10225144_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 100 %GC 43 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.953 34.0 31.0 34.0 31.0 34.0 2 33.11575 34.0 33.0 34.0 31.0 34.0 3 33.138 34.0 33.0 34.0 31.0 34.0 4 36.47225 37.0 37.0 37.0 35.0 37.0 5 36.45825 37.0 37.0 37.0 35.0 37.0 6 36.3135 37.0 37.0 37.0 35.0 37.0 7 36.39775 37.0 37.0 37.0 35.0 37.0 8 36.4295 37.0 37.0 37.0 35.0 37.0 9 38.2755 39.0 39.0 39.0 37.0 39.0 10-11 38.182125 39.0 39.0 39.0 37.0 39.0 12-13 38.247625 39.0 39.0 39.0 37.0 39.0 14-15 39.839 41.0 40.0 41.0 38.0 41.0 16-17 39.767 41.0 40.0 41.0 37.0 41.0 18-19 39.698875 41.0 40.0 41.0 37.0 41.0 20-21 39.6175 41.0 40.0 41.0 37.0 41.0 22-23 39.594125000000005 41.0 40.0 41.0 37.0 41.0 24-25 39.579125000000005 41.0 40.0 41.0 37.0 41.0 26-27 39.456125 41.0 40.0 41.0 36.5 41.0 28-29 39.32275 41.0 39.0 41.0 36.0 41.0 30-31 39.2765 41.0 39.0 41.0 36.0 41.0 32-33 39.046875 41.0 39.0 41.0 35.5 41.0 34-35 38.8435 40.0 38.5 41.0 35.0 41.0 36-37 38.697125 40.0 38.0 41.0 35.0 41.0 38-39 38.547375 40.0 38.0 41.0 35.0 41.0 40-41 38.442375 40.0 38.0 41.0 34.0 41.0 42-43 38.118624999999994 40.0 38.0 41.0 33.5 41.0 44-45 38.511624999999995 40.0 38.0 41.0 34.5 41.0 46-47 38.521874999999994 40.0 38.0 41.0 35.0 41.0 48-49 38.463125000000005 40.0 38.0 41.0 34.0 41.0 50-51 38.371750000000006 40.0 38.0 41.0 34.0 41.0 52-53 38.140874999999994 40.0 37.5 41.0 34.0 41.0 54-55 37.802625 40.0 37.0 41.0 33.0 41.0 56-57 37.678375 40.0 37.0 41.0 33.0 41.0 58-59 37.260375 39.0 36.0 41.0 32.0 41.0 60-61 37.136875 39.0 35.5 41.0 32.0 41.0 62-63 36.793375 39.0 35.0 41.0 32.0 41.0 64-65 36.529875 38.0 35.0 40.0 32.0 41.0 66-67 36.14875 37.0 35.0 40.0 32.0 41.0 68-69 35.825375 37.0 35.0 39.0 31.5 41.0 70-71 35.463750000000005 36.0 35.0 39.0 32.0 41.0 72-73 35.074375 36.0 35.0 38.5 31.5 40.0 74-75 34.1255 35.0 35.0 37.0 30.5 39.0 76-77 33.70825 35.0 34.0 37.0 30.0 39.0 78-79 33.413624999999996 35.0 34.0 36.0 30.0 38.0 80-81 33.13575 35.0 34.0 36.0 29.5 37.0 82-83 32.935500000000005 35.0 34.0 35.5 29.0 37.0 84-85 32.823750000000004 35.0 34.0 35.0 29.5 36.0 86-87 32.522375 35.0 34.0 35.0 29.0 36.0 88-89 32.4775 35.0 34.0 35.0 29.0 36.0 90-91 32.30175 35.0 34.0 35.0 29.0 36.0 92-93 32.133750000000006 35.0 34.0 35.0 28.0 35.0 94-95 31.949375 35.0 34.0 35.0 27.0 35.0 96-97 31.815625 35.0 34.0 35.0 26.5 35.0 98-99 31.74225 35.0 34.0 35.0 27.0 35.0 100 31.65275 35.0 34.0 35.0 25.0 35.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1101 1 0.0 1101 2 0.0 1101 3 0.0 1101 4 0.0 1101 5 0.0 1101 6 0.0 1101 7 0.0 1101 8 0.0 1101 9 0.0 1101 10-11 0.0 1101 12-13 0.0 1101 14-15 0.0 1101 16-17 0.0 1101 18-19 0.0 1101 20-21 0.0 1101 22-23 0.0 1101 24-25 0.0 1101 26-27 0.0 1101 28-29 0.0 1101 30-31 0.0 1101 32-33 0.0 1101 34-35 0.0 1101 36-37 0.0 1101 38-39 0.0 1101 40-41 0.0 1101 42-43 0.0 1101 44-45 0.0 1101 46-47 0.0 1101 48-49 0.0 1101 50-51 0.0 1101 52-53 0.0 1101 54-55 0.0 1101 56-57 0.0 1101 58-59 0.0 1101 60-61 0.0 1101 62-63 0.0 1101 64-65 0.0 1101 66-67 0.0 1101 68-69 0.0 1101 70-71 0.0 1101 72-73 0.0 1101 74-75 0.0 1101 76-77 0.0 1101 78-79 0.0 1101 80-81 0.0 1101 82-83 0.0 1101 84-85 0.0 1101 86-87 0.0 1101 88-89 0.0 1101 90-91 0.0 1101 92-93 0.0 1101 94-95 0.0 1101 96-97 0.0 1101 98-99 0.0 1101 100 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 8 1.0 9 2.0 10 6.0 11 0.0 12 5.0 13 5.0 14 8.0 15 8.0 16 3.0 17 7.0 18 7.0 19 8.0 20 9.0 21 8.0 22 6.0 23 11.0 24 16.0 25 14.0 26 15.0 27 37.0 28 49.0 29 62.0 30 40.0 31 65.0 32 63.0 33 90.0 34 135.0 35 197.0 36 393.0 37 962.0 38 1474.0 39 294.0 >>END_MODULE >>Per base sequence content warn #Base G A T C 1 28.185231539424283 37.37171464330413 21.176470588235293 13.266583229036296 2 33.575 31.4 19.025 16.0 3 28.375 34.075 22.175 15.375 4 26.85 30.2 24.825 18.125 5 25.174999999999997 31.6 23.825 19.400000000000002 6 28.95 28.000000000000004 23.7 19.35 7 27.975 28.675 23.95 19.400000000000002 8 23.075000000000003 32.475 26.174999999999997 18.275 9 23.075000000000003 31.474999999999998 26.700000000000003 18.75 10-11 24.5375 30.45 26.650000000000002 18.3625 12-13 23.4875 29.9625 26.0125 20.5375 14-15 22.175 30.75 25.887500000000003 21.1875 16-17 23.599999999999998 29.9875 25.474999999999998 20.9375 18-19 23.2125 28.012500000000003 28.725 20.05 20-21 22.675 28.199999999999996 27.750000000000004 21.375 22-23 23.5875 31.5 25.912499999999998 19.0 24-25 22.400000000000002 29.099999999999998 26.724999999999998 21.775 26-27 22.35 29.212500000000002 26.9625 21.475 28-29 22.625 28.799999999999997 26.437500000000004 22.1375 30-31 23.1375 28.487499999999997 27.875 20.5 32-33 22.8375 29.475 26.4625 21.224999999999998 34-35 23.35 29.3875 26.0125 21.25 36-37 23.2375 30.15 25.85 20.7625 38-39 24.099999999999998 29.475 26.5125 19.9125 40-41 24.25 29.825000000000003 26.1 19.825 42-43 22.7375 28.1 27.5625 21.6 44-45 21.8 29.012500000000003 27.400000000000002 21.7875 46-47 24.55 28.95 26.900000000000002 19.6 48-49 21.5375 29.7125 27.650000000000002 21.099999999999998 50-51 24.6 28.025 26.450000000000003 20.925 52-53 24.7 27.287499999999998 25.7125 22.3 54-55 23.0125 28.3875 26.8 21.8 56-57 22.3 28.499999999999996 29.062500000000004 20.1375 58-59 22.6875 28.175 27.712500000000002 21.425 60-61 22.8375 27.9125 27.5125 21.7375 62-63 22.8625 27.625 29.362500000000004 20.150000000000002 64-65 24.175 29.299999999999997 26.1125 20.4125 66-67 21.9625 30.45 27.962500000000002 19.625 68-69 22.8 30.425 27.05 19.725 70-71 22.90286285785723 30.25378172271534 26.690836354544317 20.15251906488311 72-73 23.2625 30.825000000000003 26.737499999999997 19.175 74-75 23.25 30.55 26.737499999999997 19.4625 76-77 23.2875 29.25 26.9625 20.5 78-79 23.3625 28.3875 28.462500000000002 19.787499999999998 80-81 22.925 28.262500000000003 27.3125 21.5 82-83 23.8625 28.725 26.174999999999997 21.2375 84-85 23.1625 28.65 27.500000000000004 20.6875 86-87 23.075000000000003 29.975 26.400000000000002 20.549999999999997 88-89 22.7375 28.749999999999996 26.887499999999996 21.625 90-91 24.175 28.075 26.6 21.15 92-93 23.1875 28.4375 27.625 20.75 94-95 23.075000000000003 27.55 28.675 20.7 96-97 24.0 29.175 26.400000000000002 20.424999999999997 98-99 23.0625 27.962500000000002 27.8375 21.1375 100 23.974999999999998 28.425 26.924999999999997 20.674999999999997 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 1.0 1 1.0 2 1.5 3 1.0 4 0.0 5 0.0 6 0.5 7 0.5 8 0.0 9 1.0 10 1.0 11 0.5 12 1.5 13 1.5 14 1.0 15 3.0 16 5.0 17 4.0 18 3.0 19 4.5 20 4.5 21 2.5 22 4.0 23 7.5 24 9.5 25 10.0 26 15.0 27 14.5 28 9.0 29 17.5 30 21.0 31 21.5 32 32.0 33 39.0 34 47.0 35 67.0 36 101.0 37 114.5 38 143.0 39 178.5 40 194.0 41 221.0 42 241.0 43 249.0 44 242.5 45 235.0 46 240.0 47 227.5 48 200.5 49 179.0 50 141.0 51 110.0 52 98.5 53 90.5 54 92.0 55 81.0 56 50.5 57 32.5 58 30.5 59 26.5 60 27.0 61 26.0 62 16.5 63 13.5 64 9.5 65 4.0 66 2.5 67 3.5 68 4.0 69 2.5 70 3.5 71 3.0 72 2.5 73 3.5 74 1.5 75 0.5 76 0.5 77 0.0 78 0.0 79 0.0 80 0.5 81 1.0 82 0.5 83 0.5 84 0.5 85 0.0 86 0.0 87 0.0 88 0.5 89 0.5 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 0.125 2 0.0 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10-11 0.0 12-13 0.0 14-15 0.0 16-17 0.0 18-19 0.0 20-21 0.0 22-23 0.0 24-25 0.0 26-27 0.0 28-29 0.0 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 54-55 0.0 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.0 68-69 0.0 70-71 0.0125 72-73 0.0 74-75 0.0 76-77 0.0 78-79 0.0 80-81 0.0 82-83 0.0 84-85 0.0 86-87 0.0 88-89 0.0 90-91 0.0 92-93 0.0 94-95 0.0 96-97 0.0 98-99 0.0 100 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 100 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 95.0 #Duplication Level Percentage of deduplicated Percentage of total 1 98.60526315789474 93.675 2 0.8684210526315789 1.6500000000000001 3 0.2368421052631579 0.675 4 0.05263157894736842 0.2 5 0.10526315789473684 0.5 6 0.0 0.0 7 0.05263157894736842 0.35000000000000003 8 0.0 0.0 9 0.02631578947368421 0.22499999999999998 >10 0.02631578947368421 0.4 >50 0.02631578947368421 2.325 >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 fail #Sequence Count Percentage Possible Source AGATCGGAAGAGCACACGTCTGAACTCCAGTCACACAGTGATCTCGTATG 93 2.325 TruSeq Adapter, Index 5 (100% over 49bp) CAACACGGGGAAACTTACCAGGTCCAGACATAGTAAGGATTGACAGACTG 16 0.4 No Hit TACCTGGTTGATCCTGCCAGTAGTCATATGCTTGTCTCAAAGATTAAGCC 9 0.22499999999999998 No Hit TTTGACCTCAAATCAGGTAGGAACACCCGCTGAACTTAAGCATATCAATA 7 0.17500000000000002 No Hit CTCTTAGTACTGCACCATCTCATCGTCATGTGATCCTTTTGCTCCTCCCT 7 0.17500000000000002 No Hit AGAATGCATTGGATGGATGCCCGGGCATTGAGAAGGAAGGACGCTTTCAA 5 0.125 No Hit GCGACCCCAGGTCAGGCGGGACTACCCGCTGAGTTTAAGCATATCAATAA 5 0.125 No Hit ACGTCGACGATGAATCATTCAAATTTCTGCCCTATCAACTTTCGATGGTA 5 0.125 No Hit GCTCTTAGTACTGCACCATCTCATCGTCATGTGATCCTTTTGCTCCTCCC 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 3.025 0.0 0.0 0.0 0.0 2 3.025 0.0 0.0 0.0 0.0 3 3.025 0.0 0.0 0.0 0.0 4 3.025 0.0 0.0 0.0 0.0 5 3.025 0.0 0.0 0.0 0.0 6 3.025 0.0 0.0 0.0 0.0 7 3.025 0.0 0.0 0.0 0.0 8 3.025 0.0 0.0 0.0 0.0 9 3.025 0.0 0.0 0.0 0.0 10-11 3.025 0.0 0.0 0.0 0.0 12-13 3.025 0.0 0.0 0.0 0.0 14-15 3.05 0.0 0.0 0.0 0.0 16-17 3.075 0.0 0.0 0.0 0.0 18-19 3.075 0.0 0.0 0.0 0.0 20-21 3.0875000000000004 0.0 0.0 0.0 0.0 22-23 3.1 0.0 0.0 0.0 0.0 24-25 3.1375 0.0 0.0 0.0 0.0 26-27 3.15 0.0 0.0 0.0 0.0 28-29 3.15 0.0 0.0 0.0 0.0 30-31 3.15 0.0 0.0 0.0 0.0 32-33 3.15 0.0 0.0 0.0 0.0 34-35 3.15 0.0 0.0 0.0 0.0 36-37 3.1624999999999996 0.0 0.0 0.0 0.0 38-39 3.175 0.0 0.0 0.0 0.0 40-41 3.175 0.0 0.0 0.0 0.0 42-43 3.175 0.0 0.0 0.0 0.0 44-45 3.175 0.0 0.0 0.0 0.0 46-47 3.175 0.0 0.0 0.0 0.0 48-49 3.175 0.0 0.0 0.0 0.0 50-51 3.175 0.0 0.0 0.0 0.0 52-53 3.175 0.0 0.0 0.0 0.0 54-55 3.175 0.0 0.0 0.0 0.0 56-57 3.2 0.0 0.0 0.0 0.0 58-59 3.2 0.0 0.0 0.0 0.0 60-61 3.2 0.0 0.0 0.0 0.0 62-63 3.2 0.0 0.0 0.0 0.0 64-65 3.2 0.0 0.0 0.0 0.0 66-67 3.2 0.0 0.0 0.0 0.0 68-69 3.2125000000000004 0.0 0.0 0.0 0.0 70-71 3.225 0.0 0.0 0.0 0.0 72-73 3.225 0.0 0.0 0.0 0.0 74-75 3.225 0.0 0.0 0.0 0.0 76-77 3.225 0.0 0.0 0.0 0.0 78-79 3.25 0.0 0.0 0.0 0.0 80-81 3.2874999999999996 0.0 0.0 0.0 0.0 82-83 3.3 0.0 0.0 0.0 0.0 84-85 3.35 0.0 0.0 0.0 0.0 86-87 3.3875 0.0 0.0 0.0 0.0 88 3.4 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR10225144 read2 length is 100 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR10225144_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 100 %GC 43 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 32.28275 34.0 31.0 34.0 30.0 34.0 2 32.496 34.0 31.0 34.0 31.0 34.0 3 32.386 34.0 31.0 34.0 30.0 34.0 4 35.8895 37.0 37.0 37.0 35.0 37.0 5 35.72125 37.0 35.0 37.0 35.0 37.0 6 35.70775 37.0 35.0 37.0 35.0 37.0 7 35.6975 37.0 36.0 37.0 35.0 37.0 8 35.73225 37.0 37.0 37.0 35.0 37.0 9 37.5435 39.0 39.0 39.0 35.0 39.0 10-11 37.474875 39.0 38.5 39.0 35.0 39.0 12-13 37.494625 39.0 38.5 39.0 35.0 39.0 14-15 38.979 41.0 39.5 41.0 35.5 41.0 16-17 38.891000000000005 41.0 39.5 41.0 35.0 41.0 18-19 38.69825 41.0 39.0 41.0 35.0 41.0 20-21 38.510000000000005 41.0 39.0 41.0 34.0 41.0 22-23 38.44799999999999 41.0 39.0 41.0 34.0 41.0 24-25 38.367000000000004 41.0 39.0 41.0 34.0 41.0 26-27 38.27825 41.0 39.0 41.0 34.0 41.0 28-29 38.15175 40.0 38.5 41.0 34.0 41.0 30-31 37.928375 40.0 38.0 41.0 33.0 41.0 32-33 37.774125 40.0 38.0 41.0 33.0 41.0 34-35 37.685125 40.0 38.0 41.0 33.0 41.0 36-37 37.547625 40.0 38.0 41.0 32.5 41.0 38-39 37.458875000000006 40.0 38.0 41.0 32.5 41.0 40-41 37.457375 40.0 38.0 41.0 32.5 41.0 42-43 37.19375 40.0 37.5 41.0 31.5 41.0 44-45 37.299499999999995 40.0 37.5 41.0 32.0 41.0 46-47 37.494625 40.0 38.0 41.0 32.0 41.0 48-49 37.423875 40.0 37.5 41.0 32.0 41.0 50-51 37.301375 40.0 37.0 41.0 32.0 41.0 52-53 37.101 40.0 36.5 41.0 31.5 41.0 54-55 36.897999999999996 40.0 36.0 41.0 31.0 41.0 56-57 36.77075 39.5 36.0 41.0 32.0 41.0 58-59 36.497375000000005 39.0 35.5 41.0 30.5 41.0 60-61 36.27175 39.0 35.0 41.0 31.0 41.0 62-63 35.97875 38.5 35.0 41.0 30.5 41.0 64-65 35.399125 37.5 35.0 40.0 29.5 41.0 66-67 34.773125 37.0 35.0 40.0 28.5 41.0 68-69 34.150125 36.5 35.0 39.5 26.0 41.0 70-71 33.796375 36.0 34.0 39.0 26.0 41.0 72-73 33.369749999999996 35.5 34.0 38.5 25.5 40.0 74-75 32.985875 35.0 34.0 37.0 24.5 39.5 76-77 32.62125 35.0 34.0 37.0 24.0 39.0 78-79 32.370875 35.0 34.0 36.5 24.5 39.0 80-81 32.076499999999996 35.0 34.0 36.0 24.0 37.0 82-83 31.82425 35.0 33.5 36.0 24.5 37.0 84-85 31.558 35.0 33.0 35.0 23.0 37.0 86-87 31.25425 35.0 33.0 35.0 20.0 36.0 88-89 31.00275 35.0 33.0 35.0 18.5 36.0 90-91 30.767625000000002 35.0 33.0 35.0 15.0 36.0 92-93 30.558625 35.0 33.0 35.0 4.5 35.0 94-95 30.361875 35.0 32.5 35.0 2.0 35.0 96-97 30.20625 35.0 32.0 35.0 2.0 35.0 98-99 30.075875 35.0 32.0 35.0 2.0 35.0 100 29.9425 35.0 32.0 35.0 2.0 35.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1101 1 0.0 1101 2 0.0 1101 3 0.0 1101 4 0.0 1101 5 0.0 1101 6 0.0 1101 7 0.0 1101 8 0.0 1101 9 0.0 1101 10-11 0.0 1101 12-13 0.0 1101 14-15 0.0 1101 16-17 0.0 1101 18-19 0.0 1101 20-21 0.0 1101 22-23 0.0 1101 24-25 0.0 1101 26-27 0.0 1101 28-29 0.0 1101 30-31 0.0 1101 32-33 0.0 1101 34-35 0.0 1101 36-37 0.0 1101 38-39 0.0 1101 40-41 0.0 1101 42-43 0.0 1101 44-45 0.0 1101 46-47 0.0 1101 48-49 0.0 1101 50-51 0.0 1101 52-53 0.0 1101 54-55 0.0 1101 56-57 0.0 1101 58-59 0.0 1101 60-61 0.0 1101 62-63 0.0 1101 64-65 0.0 1101 66-67 0.0 1101 68-69 0.0 1101 70-71 0.0 1101 72-73 0.0 1101 74-75 0.0 1101 76-77 0.0 1101 78-79 0.0 1101 80-81 0.0 1101 82-83 0.0 1101 84-85 0.0 1101 86-87 0.0 1101 88-89 0.0 1101 90-91 0.0 1101 92-93 0.0 1101 94-95 0.0 1101 96-97 0.0 1101 98-99 0.0 1101 100 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 2 31.0 3 9.0 4 6.0 5 4.0 6 10.0 7 12.0 8 6.0 9 6.0 10 5.0 11 2.0 12 8.0 13 6.0 14 9.0 15 7.0 16 8.0 17 11.0 18 10.0 19 8.0 20 6.0 21 22.0 22 13.0 23 24.0 24 38.0 25 65.0 26 38.0 27 29.0 28 43.0 29 44.0 30 43.0 31 52.0 32 87.0 33 100.0 34 162.0 35 199.0 36 351.0 37 831.0 38 1342.0 39 353.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 40.775 15.25 15.475 28.499999999999996 2 31.4 6.0249999999999995 20.025000000000002 42.55 3 20.8 8.200000000000001 19.85 51.15 4 23.225 7.7 20.75 48.325 5 25.35 10.174999999999999 22.725 41.75 6 33.650000000000006 12.325 25.474999999999998 28.549999999999997 7 22.475 26.200000000000003 31.874999999999996 19.45 8 15.65 31.35 33.1 19.900000000000002 9 16.55 30.625000000000004 33.7 19.125 10-11 18.2625 30.8125 31.8 19.125 12-13 19.25 27.1375 30.85 22.7625 14-15 18.637500000000003 27.6125 32.737500000000004 21.0125 16-17 19.3875 27.55 30.075000000000003 22.9875 18-19 20.4875 28.825 30.475 20.2125 20-21 19.2 29.725 30.125 20.95 22-23 21.0125 28.999999999999996 27.975 22.0125 24-25 20.5375 30.062499999999996 28.762500000000003 20.6375 26-27 19.400000000000002 31.9875 28.0875 20.525 28-29 20.575 29.462500000000002 27.950000000000003 22.0125 30-31 19.625 27.8125 29.125 23.4375 32-33 19.875 28.375 29.312500000000004 22.4375 34-35 20.225 29.9 28.249999999999996 21.625 36-37 19.3 29.625 29.15 21.925 38-39 19.112499999999997 27.825 28.199999999999996 24.8625 40-41 19.9625 28.0625 28.65 23.325000000000003 42-43 20.3875 29.312500000000004 29.025000000000002 21.275 44-45 21.6625 28.725 27.6125 22.0 46-47 20.0375 28.549999999999997 28.5875 22.825 48-49 20.95 28.712500000000002 27.525 22.8125 50-51 19.75 28.8375 27.5875 23.825 52-53 18.8 30.112499999999997 28.6625 22.425 54-55 19.025 29.099999999999998 29.325000000000003 22.55 56-57 18.55 29.562500000000004 29.9 21.987499999999997 58-59 19.8875 29.762499999999996 27.8875 22.4625 60-61 18.85 30.9875 27.462500000000002 22.7 62-63 19.7375 30.912499999999998 27.287499999999998 22.0625 64-65 19.7125 30.162499999999998 27.2625 22.8625 66-67 19.5875 30.85 27.6375 21.925 68-69 18.787499999999998 29.9 27.975 23.3375 70-71 20.525 30.425 27.474999999999998 21.575 72-73 19.8 30.075000000000003 27.800000000000004 22.325 74-75 20.375 28.875 27.950000000000003 22.8 76-77 20.925 28.6375 27.725 22.7125 78-79 21.2 28.9375 27.5625 22.3 80-81 20.424999999999997 30.1875 26.8375 22.55 82-83 20.225 28.275 27.800000000000004 23.7 84-85 20.5 28.575 27.8625 23.0625 86-87 20.674999999999997 28.4375 27.125 23.7625 88-89 21.3 29.1125 27.200000000000003 22.3875 90-91 20.7 29.1125 27.962500000000002 22.225 92-93 21.0125 29.325000000000003 27.125 22.537499999999998 94-95 20.6625 28.5875 27.625 23.125 96-97 20.5125 28.5625 27.950000000000003 22.975 98-99 20.7 28.462500000000002 26.787499999999998 24.05 100 20.474999999999998 28.925 28.199999999999996 22.400000000000002 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 0.0 1 0.0 2 0.0 3 0.0 4 0.5 5 1.0 6 0.5 7 0.0 8 0.5 9 1.0 10 1.5 11 1.5 12 1.0 13 1.0 14 3.0 15 3.5 16 3.5 17 6.5 18 6.0 19 2.0 20 0.5 21 3.0 22 7.5 23 10.5 24 10.5 25 7.0 26 6.5 27 12.0 28 25.5 29 35.5 30 35.5 31 37.5 32 49.0 33 69.5 34 79.5 35 87.0 36 104.5 37 126.0 38 140.5 39 174.0 40 209.5 41 206.5 42 192.5 43 195.5 44 216.5 45 217.0 46 210.0 47 191.0 48 172.0 49 154.5 50 135.5 51 124.5 52 100.5 53 93.0 54 80.5 55 60.0 56 50.0 57 50.5 58 55.0 59 49.5 60 40.0 61 29.5 62 23.0 63 20.0 64 15.0 65 9.5 66 5.5 67 6.5 68 7.0 69 4.0 70 3.0 71 2.5 72 3.0 73 3.0 74 2.5 75 1.5 76 0.0 77 0.0 78 1.0 79 2.0 80 1.0 81 0.5 82 0.5 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 0.5 96 0.5 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 0.0 7 0.0 8 0.0 9 0.0 10-11 0.0 12-13 0.0 14-15 0.0 16-17 0.0 18-19 0.0 20-21 0.0 22-23 0.0 24-25 0.0 26-27 0.0 28-29 0.0 30-31 0.0 32-33 0.0 34-35 0.0 36-37 0.0 38-39 0.0 40-41 0.0 42-43 0.0 44-45 0.0 46-47 0.0 48-49 0.0 50-51 0.0 52-53 0.0 54-55 0.0 56-57 0.0 58-59 0.0 60-61 0.0 62-63 0.0 64-65 0.0 66-67 0.0 68-69 0.0 70-71 0.0 72-73 0.0 74-75 0.0 76-77 0.0 78-79 0.0 80-81 0.0 82-83 0.0 84-85 0.0 86-87 0.0 88-89 0.0 90-91 0.0 92-93 0.0 94-95 0.0 96-97 0.0 98-99 0.0 100 0.0 >>END_MODULE >>Sequence Length Distribution pass #Length Count 100 4000.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 94.5 #Duplication Level Percentage of deduplicated Percentage of total 1 97.91005291005291 92.525 2 1.3492063492063493 2.55 3 0.3703703703703704 1.05 4 0.21164021164021166 0.8 5 0.07936507936507936 0.375 6 0.0 0.0 7 0.026455026455026457 0.17500000000000002 8 0.026455026455026457 0.2 9 0.0 0.0 >10 0.0 0.0 >50 0.026455026455026457 2.325 >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 fail #Sequence Count Percentage Possible Source AGATCGGAAGAGCGTCGTGTAGGGAAAGAGTGTAGATCTCGGTGGTCGCC 93 2.325 Illumina Single End PCR Primer 1 (100% over 50bp) GTTCGCTATCGGTCTCTCGCCGTTATTTAGCCTTAGGAGAAATTTACCTC 8 0.2 No Hit GCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCC 7 0.17500000000000002 No Hit CCCTCACGGTACTTGTTCGCTATCGGTCTCTCGCCGTTATTTAGCCTTAG 5 0.125 No Hit CCCCTCTTCGGCCTTCAAAGTTCTCATTTGAATATTTGCTACTACCACCA 5 0.125 No Hit AGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGC 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 2.6 0.0 0.0 0.0 0.0 2 2.6 0.0 0.0 0.0 0.0 3 2.6 0.0 0.0 0.0 0.0 4 2.6 0.0 0.0 0.0 0.0 5 2.6 0.0 0.0 0.0 0.0 6 2.6 0.0 0.0 0.0 0.0 7 2.6 0.0 0.0 0.0 0.0 8 2.6 0.0 0.0 0.0 0.0 9 2.6 0.0 0.0 0.0 0.0 10-11 2.6 0.0 0.0 0.0 0.0 12-13 2.6125 0.0 0.0 0.0 0.0 14-15 2.65 0.0 0.0 0.0 0.0 16-17 2.675 0.0 0.0 0.0 0.0 18-19 2.7375 0.0 0.0 0.0 0.0 20-21 2.8 0.0 0.0 0.0 0.0 22-23 2.8 0.0 0.0 0.0 0.0 24-25 2.8625 0.0 0.0 0.0 0.0 26-27 2.95 0.0 0.0 0.0 0.0 28-29 2.95 0.0 0.0 0.0 0.0 30-31 3.0 0.0 0.0 0.0 0.0 32-33 3.0 0.0 0.0 0.0 0.0 34-35 3.0 0.0 0.0 0.0 0.0 36-37 3.0125 0.0 0.0 0.0 0.0 38-39 3.025 0.0 0.0 0.0 0.0 40-41 3.025 0.0 0.0 0.0 0.0 42-43 3.025 0.0 0.0 0.0 0.0 44-45 3.025 0.0 0.0 0.0 0.0 46-47 3.025 0.0 0.0 0.0 0.0 48-49 3.025 0.0 0.0 0.0 0.0 50-51 3.025 0.0 0.0 0.0 0.0 52-53 3.025 0.0 0.0 0.0 0.0 54-55 3.025 0.0 0.0 0.0 0.0 56-57 3.05 0.0 0.0 0.0 0.0 58-59 3.05 0.0 0.0 0.0 0.0 60-61 3.05 0.0 0.0 0.0 0.0 62-63 3.05 0.0 0.0 0.0 0.0 64-65 3.05 0.0 0.0 0.0 0.0 66-67 3.05 0.0 0.0 0.0 0.0 68-69 3.0625 0.0 0.0 0.0 0.0 70-71 3.075 0.0 0.0 0.0 0.0 72-73 3.075 0.0 0.0 0.0 0.0 74-75 3.075 0.0 0.0 0.0 0.0 76-77 3.075 0.0 0.0 0.0 0.0 78-79 3.1 0.0 0.0 0.0 0.0 80-81 3.1375 0.0 0.0 0.0 0.0 82-83 3.15 0.0 0.0 0.0 0.0 84-85 3.175 0.0 0.0 0.0 0.0 86-87 3.2125000000000004 0.0 0.0 0.0 0.0 88 3.225 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594353 spots for SRR10225144.sra Written 2594353 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra Read 2594342 spots for SRR10225144.sra Written 2594342 spots for SRR10225144.sra SRR ids: ['SRR10225144.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_ff20j1eq SRR10225144.sra spots: 51886851 blocks: [[1, 2594342], [2594343, 5188684], [5188685, 7783026], [7783027, 10377368], [10377369, 12971710], [12971711, 15566052], [15566053, 18160394], [18160395, 20754736], [20754737, 23349078], [23349079, 25943420], [25943421, 28537762], [28537763, 31132104], [31132105, 33726446], [33726447, 36320788], [36320789, 38915130], [38915131, 41509472], [41509473, 44103814], [44103815, 46698156], [46698157, 49292498], [49292499, 51886851]] SRR10225144 file size 14184633 SRR10225144 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 SRR10225144 SRR10225144_1.fastq SRR10225144_2.fastq Input file: SRR10225144_1.fastq Paired file: SRR10225144_2.fastq trimmed: SRR10225144-trimmed-pair1.fastq, SRR10225144-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 Tue Feb 11 23:37:37 2025 >> started Tue Feb 11 23:38:47 2025 >> done (70.472s) 51886851 read pairs processed; of these: 390594 ( 0.75%) short read pairs filtered out after trimming by size control 1894204 ( 3.65%) empty read pairs filtered out after trimming by size control 49602053 (95.60%) read pairs available; of these: 7084284 (14.28%) trimmed read pairs available after processing 42517769 (85.72%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 18 20701 0.04% 19 13291 0.03% 20 16182 0.03% 21 7077 0.01% 22 4384 0.01% 23 5242 0.01% 24 11877 0.02% 25 11931 0.02% 26 9278 0.02% 27 6524 0.01% 28 4555 0.01% 29 5466 0.01% 30 5665 0.01% 31 4112 0.01% 32 4503 0.01% 33 3314 0.01% 34 2740 0.01% 35 2895 0.01% 36 3084 0.01% 37 3367 0.01% 38 3653 0.01% 39 3716 0.01% 40 4429 0.01% 41 4659 0.01% 42 4799 0.01% 43 5519 0.01% 44 5502 0.01% 45 6114 0.01% 46 6372 0.01% 47 6643 0.01% 48 7205 0.01% 49 7682 0.02% 50 8333 0.02% 51 8870 0.02% 52 9509 0.02% 53 10233 0.02% 54 11011 0.02% 55 12826 0.03% 56 12996 0.03% 57 14169 0.03% 58 15003 0.03% 59 85106 0.17% 60 89595 0.18% 61 55247 0.11% 62 59718 0.12% 63 63779 0.13% 64 64769 0.13% 65 68393 0.14% 66 75313 0.15% 67 75754 0.15% 68 74564 0.15% 69 75982 0.15% 70 79067 0.16% 71 76296 0.15% 72 76620 0.15% 73 82392 0.17% 74 81377 0.16% 75 85371 0.17% 76 92325 0.19% 77 87155 0.18% 78 88041 0.18% 79 90576 0.18% 80 94585 0.19% 81 100309 0.20% 82 104531 0.21% 83 111516 0.22% 84 115623 0.23% 85 115896 0.23% 86 111466 0.22% 87 123963 0.25% 88 131480 0.27% 89 146054 0.29% 90 170572 0.34% 91 252675 0.51% 92 179736 0.36% 93 212108 0.43% 94 221391 0.45% 95 896375 1.81% 96 296535 0.60% 97 373066 0.75% 98 521304 1.05% 99 862228 1.74% 100 42517769 85.72% 49602053 reads passed initial QC criterion=sequence-density sequence-density=1.05 sequence-density-rank=1 fanout-score=1.99 fanout-score-rank=20 prefix-density=1.03 prefix-fanout=2.0 sequence=GATTCCCCTAGTAAC criterion=fanout-score sequence-density=0.01 sequence-density-rank=33 fanout-score=43.49 fanout-score-rank=1 prefix-density=0.05 prefix-fanout=5.8 sequence=AGTTTTTGGGTTCTGGGGGGAGTATGGTCGCAAGGCTGAAACTTAAAGGAATTGACGGAAGGGCACCACCAGGAGTGGAGCCTGCGGCTTAATTTGACTCAACACGGGGAAACTTACCAGGTCCAGACATAGTAAGGATTGACAGACTGAGAGCTCTTTCTTGATTCTATGGGTGGTGGTGCATGGCCGTTCTTAGTTGGTGGAGCGATTTGTCTGGTTAATTCCGTTAACGAACGAGACCTCAGCCTGCTAACTAGCTATGCGGAGGTGACCCTCCGCGGCCAGCTTCTTAGAGGGACTATGGCCTTCCAGGCCAAGGAAGTTTGAGGCAATAACAGGTCTGTGATGCCCTTAGATGTTCTGGGCCGCACGCGCGCTACACTGATGTATTCAACGAGTCTATAGCCTTGGCCGACAGGCCCGGGTAATCTTTGAAATTTCATCGTGATGGGGATAGATCATTGCAATTGTTGGTCTTC criterion=sequence-density sequence-density=1.63 sequence-density-rank=1 fanout-score=2.16 fanout-score-rank=22 prefix-density=1.70 prefix-fanout=2.1 sequence=GCTATCGGTCTCTCGCC criterion=fanout-score sequence-density=0.01 sequence-density-rank=36 fanout-score=20.34 fanout-score-rank=1 prefix-density=0.03 prefix-fanout=3.7 sequence=ATCCCTTCTGAGTTCATAGCTTCATAGATTTACAGTGACACCCCCATTATATCATAATTAGACAATTCCATCTGGATCCCGCATCCAAAACCATCCCGCTTTTCTTCTTCAACAGTCTTACAGTAACAAAACACCCAGAAA SRR10225144 testing PE reads STAR mapping to Ensembl genome Started job on | Feb 11 23:39:32 Started mapping on | Feb 11 23:39:32 Finished on | Feb 11 23:49:17 Mapping speed, Million of reads per hour | 305.24 Number of input reads | 49602053 Average input read length | 195 UNIQUE READS: Uniquely mapped reads number | 35572063 Uniquely mapped reads % | 71.71% Average mapped length | 194.73 Number of splices: Total | 13605328 Number of splices: Annotated (sjdb) | 13176059 Number of splices: GT/AG | 13287564 Number of splices: GC/AG | 204820 Number of splices: AT/AC | 18918 Number of splices: Non-canonical | 94026 Mismatch rate per base, % | 0.44% Deletion rate per base | 0.04% Deletion average length | 2.48 Insertion rate per base | 0.03% Insertion average length | 2.36 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1550796 % of reads mapped to multiple loci | 3.13% Number of reads mapped to too many loci | 3011771 % of reads mapped to too many loci | 6.07% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 17.81% % of reads unmapped: other | 1.27% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 12696319 12696319 12696319 N_multimapping 1550796 1550796 1550796 N_noFeature 2017326 2471303 34804067 N_ambiguous 582685 263259 7412 UnstrandedReadsAssigned:32972052 PositiveStrandReadsAssigned:32837501 NegativeStrandReadsAssigned:760584 Dataset is classified positive stranded MeadianReadLen=100 20thPercentileLength=100 echo kmer=95 SRR10225144 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: SRR10225144-trimmed-pair1.fastq SRR10225144-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 49,602,053 reads, 35,428,116 reads pseudoaligned [quant] estimated average fragment length: 248.892 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,204 rounds 52401 SRR10225144.ke.tsv 34699 SRR10225144.se.tsv 87100 total ==> SRR10225144.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1770.11 7003 77.706 Potri.005G024800.1.v4.1 1035 787.108 1392 34.7357 Potri.004G059700.1.v4.1 961 713.115 776 21.3733 Potri.007G009000.2.v4.1 1416 1168.11 0 0 Potri.003G141000.2.v4.1 2943 2695.11 1166 8.49753 Potri.016G087400.1.v4.1 270 63.6699 2872.95 886.268 Potri.015G069301.1.v4.1 564 316.442 0 0 Potri.010G195200.1.v4.1 1773 1525.11 146 1.88028 Potri.012G127500.1.v4.1 977 729.112 5724 154.197 ==> SRR10225144.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 46 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 547 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 5 Potri.001G416900.v4.1 5 Potri.001G452600.v4.1 481 SRR10225144 completed mapping pipeline successfully