Starting /dee2/code/volunteer_pipeline.sh SRR9668913 current disk space = 3052033527808 free memory = 1503492612 SRR9668913 SRAfilesize 2af69b4404a32c59b3d7092a115c41ad SRR9668913.sra SRR9668913.sra file validated SRR9668913 is paired end SRR9668913 is conventional basespace SRR9668913 read1 length is 69-76 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR9668913_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 69-76 %GC 46 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.739 32.0 32.0 32.0 32.0 32.0 2 31.71775 32.0 32.0 32.0 32.0 32.0 3 31.749 32.0 32.0 32.0 32.0 32.0 4 31.742 32.0 32.0 32.0 32.0 32.0 5 31.77075 32.0 32.0 32.0 32.0 32.0 6 35.39825 36.0 36.0 36.0 36.0 36.0 7 35.47275 36.0 36.0 36.0 36.0 36.0 8 35.42125 36.0 36.0 36.0 36.0 36.0 9 35.4375 36.0 36.0 36.0 36.0 36.0 10-11 35.33325 36.0 36.0 36.0 36.0 36.0 12-13 35.41875 36.0 36.0 36.0 36.0 36.0 14-15 35.43025 36.0 36.0 36.0 36.0 36.0 16-17 35.385374999999996 36.0 36.0 36.0 36.0 36.0 18-19 35.39475 36.0 36.0 36.0 36.0 36.0 20-21 35.329750000000004 36.0 36.0 36.0 36.0 36.0 22-23 35.3765 36.0 36.0 36.0 36.0 36.0 24-25 35.286625 36.0 36.0 36.0 36.0 36.0 26-27 35.2805 36.0 36.0 36.0 36.0 36.0 28-29 35.370125 36.0 36.0 36.0 36.0 36.0 30-31 35.310375 36.0 36.0 36.0 36.0 36.0 32-33 35.235875 36.0 36.0 36.0 36.0 36.0 34-35 35.17125 36.0 36.0 36.0 36.0 36.0 36-37 35.242374999999996 36.0 36.0 36.0 36.0 36.0 38-39 35.152874999999995 36.0 36.0 36.0 36.0 36.0 40-41 35.254875 36.0 36.0 36.0 36.0 36.0 42-43 35.166875000000005 36.0 36.0 36.0 36.0 36.0 44-45 35.116 36.0 36.0 36.0 36.0 36.0 46-47 35.116 36.0 36.0 36.0 36.0 36.0 48-49 34.991375 36.0 36.0 36.0 36.0 36.0 50-51 35.086 36.0 36.0 36.0 36.0 36.0 52-53 34.94375 36.0 36.0 36.0 34.0 36.0 54-55 34.887625 36.0 36.0 36.0 34.0 36.0 56-57 34.855875 36.0 36.0 36.0 36.0 36.0 58-59 34.77575 36.0 36.0 36.0 32.0 36.0 60-61 34.810625 36.0 36.0 36.0 32.0 36.0 62-63 34.905375 36.0 36.0 36.0 34.0 36.0 64-65 34.7765 36.0 36.0 36.0 34.0 36.0 66-67 34.72225 36.0 36.0 36.0 32.0 36.0 68-69 34.6145 36.0 36.0 36.0 32.0 36.0 70-71 34.72918229557389 36.0 36.0 36.0 32.0 36.0 72-73 34.56788956144952 36.0 36.0 36.0 32.0 36.0 74-75 34.554055123045984 36.0 36.0 36.0 32.0 36.0 76 33.78531073446328 36.0 32.0 36.0 32.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 22 3.0 23 1.0 24 6.0 25 4.0 26 12.0 27 34.0 28 41.0 29 55.0 30 64.0 31 66.0 32 112.0 33 166.0 34 385.0 35 3051.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 34.2 12.025 10.825 42.95 2 21.099999999999998 16.900000000000002 38.7 23.3 3 20.275000000000002 20.724999999999998 24.474999999999998 34.525 4 23.75 28.999999999999996 22.375 24.875 5 23.825 32.25 24.275 19.650000000000002 6 18.825 34.9 26.575 19.7 7 15.675 21.95 43.5 18.875 8 18.8 21.85 33.675 25.674999999999997 9 18.8 21.5 34.125 25.575 10-11 22.037499999999998 31.9875 22.8 23.175 12-13 21.3875 24.75 28.4125 25.45 14-15 20.825 26.4125 28.0625 24.7 16-17 21.215151893986747 26.715839479934996 26.59082385298162 25.478184773096636 18-19 22.15 26.137500000000003 27.6625 24.05 20-21 20.9125 27.224999999999998 27.3125 24.55 22-23 21.6875 27.437499999999996 27.150000000000002 23.724999999999998 24-25 21.087500000000002 27.400000000000002 27.287499999999998 24.224999999999998 26-27 20.8875 27.400000000000002 26.375 25.337500000000002 28-29 22.05 26.5375 26.674999999999997 24.7375 30-31 21.077634704338042 26.878359794974372 26.828353544193025 25.21565195649456 32-33 21.45 26.650000000000002 26.174999999999997 25.724999999999998 34-35 21.912499999999998 27.0875 26.625 24.375 36-37 20.575 27.8125 26.35 25.2625 38-39 21.912499999999998 26.525 26.424999999999997 25.137500000000003 40-41 21.4875 27.025 26.3 25.1875 42-43 21.837500000000002 26.25 27.8625 24.05 44-45 21.975 26.5125 27.437499999999996 24.075 46-47 21.8875 26.787499999999998 26.625 24.7 48-49 21.587500000000002 26.525 26.700000000000003 25.1875 50-51 21.8125 27.8625 25.7875 24.5375 52-53 21.087500000000002 26.987499999999997 26.5125 25.412499999999998 54-55 21.5375 26.974999999999998 26.625 24.8625 56-57 21.224999999999998 26.737499999999997 27.150000000000002 24.887500000000003 58-59 21.65 26.887499999999996 26.3625 25.1 60-61 20.9875 26.650000000000002 27.3 25.0625 62-63 21.7 26.6625 26.650000000000002 24.9875 64-65 20.674999999999997 27.400000000000002 27.0875 24.837500000000002 66-67 20.849999999999998 27.187499999999996 26.887499999999996 25.074999999999996 68-69 21.175 27.025 27.787499999999998 24.0125 70-71 21.380345086271568 28.119529882470616 26.85671417854464 23.643410852713178 72-73 21.498493975903614 26.97038152610442 26.64407630522088 24.887048192771086 74-75 21.00929614873838 24.448871181938912 27.39707835325365 27.144754316069058 76 22.448210922787194 0.0 40.376647834274955 37.175141242937855 >>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 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.0 12 0.0 13 0.0 14 0.0 15 0.0 16 0.0 17 0.0 18 0.0 19 0.5 20 1.5 21 2.0 22 1.5 23 2.5 24 4.0 25 4.0 26 7.0 27 15.5 28 22.0 29 22.0 30 26.5 31 31.5 32 37.5 33 50.0 34 65.5 35 79.5 36 96.0 37 111.0 38 124.0 39 160.0 40 193.5 41 224.0 42 243.0 43 240.5 44 271.0 45 294.5 46 297.0 47 313.0 48 300.5 49 283.5 50 275.5 51 242.0 52 202.0 53 168.5 54 153.0 55 139.5 56 125.5 57 104.0 58 80.0 59 72.0 60 62.5 61 44.0 62 27.5 63 19.0 64 13.0 65 11.5 66 8.5 67 6.5 68 4.0 69 1.5 70 1.5 71 1.5 72 1.5 73 4.0 74 3.5 75 1.0 76 0.5 77 0.5 78 0.5 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 0.0 7 0.0 8 0.0 9 0.0 10-11 0.0 12-13 0.0 14-15 0.0 16-17 0.0125 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 0.0125 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 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 69 1.0 70 0.0 71 6.0 72 18.0 73 80.0 74 260.0 75 980.0 76 2655.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 95.6 #Duplication Level Percentage of deduplicated Percentage of total 1 96.86192468619247 92.60000000000001 2 2.1966527196652716 4.2 3 0.653765690376569 1.875 4 0.18305439330543932 0.7000000000000001 5 0.05230125523012552 0.25 6 0.0 0.0 7 0.02615062761506276 0.17500000000000002 8 0.02615062761506276 0.2 9 0.0 0.0 >10 0.0 0.0 >50 0.0 0.0 >100 0.0 0.0 >500 0.0 0.0 >1k 0.0 0.0 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences warn #Sequence Count Percentage Possible Source CCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTTGGCTGCCA 8 0.2 No Hit GATCGGAAGAGCACACGTCTGAACTCCAGTCACGAATTCGTATCTCGTAT 7 0.17500000000000002 TruSeq Adapter, Index 7 (97% over 35bp) CCAGAACCCAAAAACTTTGATTTCTCATAAGGTGCTGGCGGAGTCCTAAA 5 0.125 No Hit CTCGTTGAATACATCAGTGTAGCGCGCGTGCGGCCCAGAACATCTAAGGGCATCACAGACCTGTTATTGCCTCAA 5 0.125 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.0 0.0 0.0 0.0 0.0 28 0.0 0.0 0.0 0.0 0.0 29 0.0 0.0 0.0 0.0 0.0 30 0.0 0.0 0.0 0.0 0.0 31 0.0 0.0 0.0 0.0 0.0 32 0.0 0.0 0.0 0.0 0.0 33 0.0 0.0 0.0 0.0 0.0 34 0.0 0.0 0.0 0.0 0.0 35 0.0 0.0 0.0 0.0 0.0 36 0.0 0.0 0.0 0.0 0.0 37 0.0 0.0 0.0 0.0 0.0 38 0.0 0.0 0.0 0.0 0.0 39 0.0 0.0 0.0 0.0 0.0 40 0.0 0.0 0.0 0.0 0.0 41 0.0 0.0 0.0 0.0 0.0 42 0.0 0.0 0.0 0.0 0.0 43 0.0 0.0 0.0 0.0 0.0 44 0.0 0.0 0.0 0.0 0.0 45 0.0 0.0 0.0 0.0 0.0 46 0.0 0.0 0.0 0.0 0.0 47 0.0 0.0 0.0 0.0 0.0 48 0.0 0.0 0.0 0.0 0.0 49 0.0 0.0 0.0 0.0 0.0 50 0.0 0.0 0.0 0.0 0.0 51 0.0 0.0 0.0 0.0 0.0 52 0.0 0.0 0.0 0.0 0.0 53 0.0 0.0 0.0 0.0 0.0 54 0.0 0.0 0.0 0.0 0.0 55 0.0 0.0 0.0 0.0 0.0 56 0.0 0.0 0.0 0.0 0.0 57 0.0 0.0 0.0 0.0 0.0 58 0.0 0.0 0.0 0.0 0.0 59 0.0 0.0 0.0 0.0 0.0 60 0.0 0.0 0.0 0.0 0.0 61 0.0 0.0 0.0 0.0 0.0 62 0.0 0.0 0.0 0.0 0.0 63 0.0 0.0 0.0 0.0 0.0 64 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE SRR9668913 read2 length is 69-76 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR9668913_2.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000 Sequences flagged as poor quality 0 Sequence length 69-76 %GC 47 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 31.49475 32.0 32.0 32.0 32.0 32.0 2 31.32325 32.0 32.0 32.0 32.0 32.0 3 31.40825 32.0 32.0 32.0 32.0 32.0 4 31.44425 32.0 32.0 32.0 32.0 32.0 5 31.41 32.0 32.0 32.0 32.0 32.0 6 35.0925 36.0 36.0 36.0 36.0 36.0 7 35.1185 36.0 36.0 36.0 36.0 36.0 8 34.9915 36.0 36.0 36.0 36.0 36.0 9 35.03025 36.0 36.0 36.0 36.0 36.0 10-11 35.000625 36.0 36.0 36.0 36.0 36.0 12-13 35.075625 36.0 36.0 36.0 36.0 36.0 14-15 35.021875 36.0 36.0 36.0 36.0 36.0 16-17 35.00625 36.0 36.0 36.0 36.0 36.0 18-19 34.941374999999994 36.0 36.0 36.0 36.0 36.0 20-21 34.856375 36.0 36.0 36.0 36.0 36.0 22-23 34.892250000000004 36.0 36.0 36.0 36.0 36.0 24-25 34.860625 36.0 36.0 36.0 36.0 36.0 26-27 34.840875 36.0 36.0 36.0 36.0 36.0 28-29 34.803625 36.0 36.0 36.0 36.0 36.0 30-31 34.767375 36.0 36.0 36.0 36.0 36.0 32-33 34.748000000000005 36.0 36.0 36.0 36.0 36.0 34-35 34.77675 36.0 36.0 36.0 36.0 36.0 36-37 34.7275 36.0 36.0 36.0 36.0 36.0 38-39 34.788 36.0 36.0 36.0 36.0 36.0 40-41 34.722125 36.0 36.0 36.0 36.0 36.0 42-43 34.6205 36.0 36.0 36.0 36.0 36.0 44-45 34.60825 36.0 36.0 36.0 36.0 36.0 46-47 34.658874999999995 36.0 36.0 36.0 36.0 36.0 48-49 34.599125 36.0 36.0 36.0 36.0 36.0 50-51 34.483875 36.0 36.0 36.0 32.0 36.0 52-53 34.532250000000005 36.0 36.0 36.0 32.0 36.0 54-55 34.4585 36.0 36.0 36.0 32.0 36.0 56-57 34.521375 36.0 36.0 36.0 32.0 36.0 58-59 34.492 36.0 36.0 36.0 32.0 36.0 60-61 34.366375 36.0 36.0 36.0 32.0 36.0 62-63 34.41075 36.0 36.0 36.0 32.0 36.0 64-65 34.355625 36.0 36.0 36.0 32.0 36.0 66-67 34.342749999999995 36.0 36.0 36.0 32.0 36.0 68-69 34.261875 36.0 36.0 36.0 32.0 36.0 70-71 34.28296509470039 36.0 36.0 36.0 32.0 36.0 72-73 34.2448699499946 36.0 36.0 36.0 32.0 36.0 74-75 34.172434470297205 36.0 36.0 36.0 32.0 36.0 76 33.5 36.0 36.0 36.0 27.0 36.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 15 5.0 16 12.0 17 9.0 18 5.0 19 4.0 20 6.0 21 7.0 22 10.0 23 9.0 24 12.0 25 13.0 26 33.0 27 30.0 28 56.0 29 48.0 30 67.0 31 102.0 32 125.0 33 173.0 34 447.0 35 2827.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 34.34292866082603 20.275344180225282 13.141426783479348 32.24030037546934 2 28.01400700350175 24.787393696848426 31.990995497748877 15.207603801900952 3 24.9 25.874999999999996 27.875 21.349999999999998 4 26.174999999999997 33.45 20.424999999999997 19.950000000000003 5 27.450000000000003 34.975 20.1 17.474999999999998 6 22.650000000000002 35.825 22.025 19.5 7 22.7 18.0 37.7 21.6 8 23.825 22.775000000000002 27.075 26.325 9 25.674999999999997 24.224999999999998 28.349999999999998 21.75 10-11 26.4625 30.1875 21.525 21.825 12-13 26.1 24.0125 26.7125 23.175 14-15 24.575 27.462500000000002 26.5625 21.4 16-17 25.8 26.125 25.912499999999998 22.162499999999998 18-19 25.4625 26.125 25.7 22.7125 20-21 25.4875 26.924999999999997 25.4875 22.1 22-23 25.7625 25.937500000000004 25.937500000000004 22.3625 24-25 25.35 26.825 26.237500000000004 21.587500000000002 26-27 25.35 26.674999999999997 26.5125 21.462500000000002 28-29 26.400000000000002 26.5375 26.150000000000002 20.9125 30-31 26.075 26.6625 25.9875 21.275 32-33 25.575 27.825 24.8625 21.7375 34-35 25.1 27.775 25.324999999999996 21.8 36-37 24.6125 26.8 26.775 21.8125 38-39 25.2125 26.974999999999998 26.174999999999997 21.637500000000003 40-41 26.325 27.287499999999998 25.074999999999996 21.3125 42-43 25.2375 26.5875 26.087500000000002 22.0875 44-45 24.8125 27.1125 25.95 22.125 46-47 24.8 27.525 26.6625 21.0125 48-49 25.137500000000003 27.175 25.087500000000002 22.6 50-51 25.324999999999996 27.075 27.075 20.525 52-53 25.650000000000002 26.525 26.35 21.475 54-55 25.662499999999998 26.900000000000002 26.187500000000004 21.25 56-57 26.424999999999997 26.5 25.35 21.725 58-59 24.975 26.625 26.650000000000002 21.75 60-61 25.887500000000003 26.05 27.075 20.9875 62-63 25.4625 25.837500000000002 26.3125 22.3875 64-65 26.0 26.487500000000004 26.2625 21.25 66-67 25.474999999999998 27.037499999999998 25.912499999999998 21.575 68-69 25.374999999999996 27.025 27.075 20.525 70-71 24.346629986244842 27.822933600100036 26.19732399649869 21.633112417156433 72-73 24.871247330737344 26.793116442657954 26.516769250094207 21.81886697651049 74-75 24.833555259653796 23.462050599201064 28.428761651131822 23.275632490013315 76 28.425435276305826 0.0 39.70476911430734 31.86979560938683 >>END_MODULE >>Per sequence GC content warn #GC Content Count 0 1.0 1 1.0 2 0.5 3 0.0 4 0.0 5 0.0 6 0.0 7 0.0 8 0.0 9 0.0 10 0.0 11 0.5 12 1.0 13 0.5 14 0.0 15 0.0 16 0.5 17 1.5 18 1.0 19 0.0 20 0.0 21 0.5 22 2.0 23 2.5 24 3.0 25 4.0 26 5.5 27 5.0 28 8.0 29 14.5 30 15.0 31 18.5 32 32.5 33 42.5 34 51.0 35 72.0 36 90.5 37 101.0 38 118.5 39 169.5 40 213.0 41 242.0 42 261.0 43 275.0 44 290.5 45 297.0 46 309.0 47 299.0 48 279.0 49 267.0 50 261.5 51 233.0 52 193.5 53 165.0 54 144.0 55 131.0 56 112.0 57 95.0 58 90.5 59 71.0 60 49.0 61 49.0 62 47.5 63 30.5 64 13.5 65 12.5 66 15.0 67 16.5 68 14.5 69 8.0 70 7.0 71 8.0 72 5.5 73 4.5 74 2.5 75 1.5 76 2.0 77 3.0 78 2.0 79 0.5 80 1.0 81 0.5 82 0.5 83 1.0 84 1.5 85 2.0 86 2.0 87 1.5 88 0.5 89 0.0 90 0.5 91 0.5 92 0.0 93 0.0 94 0.5 95 0.5 96 0.0 97 1.0 98 2.0 99 16.0 100 30.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.125 2 0.05 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 0.0 >>END_MODULE >>Sequence Length Distribution warn #Length Count 69 1.0 70 1.0 71 8.0 72 19.0 73 78.0 74 276.0 75 975.0 76 2642.0 >>END_MODULE >>Sequence Duplication Levels pass #Total Deduplicated Percentage 96.825 #Duplication Level Percentage of deduplicated Percentage of total 1 97.77949909630777 94.675 2 1.9881229021430418 3.85 3 0.18073844564936742 0.525 4 0.02581977794990963 0.1 5 0.0 0.0 6 0.0 0.0 7 0.0 0.0 8 0.0 0.0 9 0.0 0.0 >10 0.02581977794990963 0.8500000000000001 >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 GGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGGG 34 0.8500000000000001 No Hit >>END_MODULE >>Adapter Content pass #Position Illumina Universal Adapter Illumina Small RNA 3' Adapter Illumina Small RNA 5' Adapter Nextera Transposase Sequence SOLID Small RNA Adapter 1 0.0 0.0 0.0 0.0 0.0 2 0.0 0.0 0.0 0.0 0.0 3 0.0 0.0 0.0 0.0 0.0 4 0.0 0.0 0.0 0.0 0.0 5 0.0 0.0 0.0 0.0 0.0 6 0.0 0.0 0.0 0.0 0.0 7 0.0 0.0 0.0 0.0 0.0 8 0.0 0.0 0.0 0.0 0.0 9 0.0 0.0 0.0 0.0 0.0 10 0.0 0.0 0.0 0.0 0.0 11 0.0 0.0 0.0 0.0 0.0 12 0.0 0.0 0.0 0.0 0.0 13 0.0 0.0 0.0 0.0 0.0 14 0.0 0.0 0.0 0.0 0.0 15 0.0 0.0 0.0 0.0 0.0 16 0.0 0.0 0.0 0.0 0.0 17 0.0 0.0 0.0 0.0 0.0 18 0.0 0.0 0.0 0.0 0.0 19 0.0 0.0 0.0 0.0 0.0 20 0.0 0.0 0.0 0.0 0.0 21 0.0 0.0 0.0 0.0 0.0 22 0.0 0.0 0.0 0.0 0.0 23 0.0 0.0 0.0 0.0 0.0 24 0.0 0.0 0.0 0.0 0.0 25 0.0 0.0 0.0 0.0 0.0 26 0.0 0.0 0.0 0.0 0.0 27 0.0 0.0 0.0 0.0 0.0 28 0.0 0.0 0.0 0.0 0.0 29 0.0 0.0 0.0 0.0 0.0 30 0.0 0.0 0.0 0.0 0.0 31 0.0 0.0 0.0 0.0 0.0 32 0.0 0.0 0.0 0.0 0.0 33 0.0 0.0 0.0 0.0 0.0 34 0.0 0.0 0.0 0.0 0.0 35 0.0 0.0 0.0 0.0 0.0 36 0.0 0.0 0.0 0.0 0.0 37 0.0 0.0 0.0 0.0 0.0 38 0.0 0.0 0.0 0.0 0.0 39 0.0 0.0 0.0 0.0 0.0 40 0.0 0.0 0.0 0.0 0.0 41 0.0 0.0 0.0 0.0 0.0 42 0.0 0.0 0.0 0.0 0.0 43 0.0 0.0 0.0 0.0 0.0 44 0.0 0.0 0.0 0.0 0.0 45 0.0 0.0 0.0 0.0 0.0 46 0.0 0.0 0.0 0.0 0.0 47 0.0 0.0 0.0 0.0 0.0 48 0.0 0.0 0.0 0.0 0.0 49 0.0 0.0 0.0 0.0 0.0 50 0.0 0.0 0.0 0.0 0.0 51 0.0 0.0 0.0 0.0 0.0 52 0.0 0.0 0.0 0.0 0.0 53 0.0 0.0 0.0 0.0 0.0 54 0.0 0.0 0.0 0.0 0.0 55 0.0 0.0 0.0 0.0 0.0 56 0.0 0.0 0.0 0.0 0.0 57 0.0 0.0 0.0 0.0 0.0 58 0.0 0.0 0.0 0.0 0.0 59 0.0 0.0 0.0 0.0 0.0 60 0.0 0.0 0.0 0.0 0.0 61 0.0 0.0 0.0 0.0 0.0 62 0.0 0.0 0.0 0.0 0.0 63 0.0 0.0 0.0 0.0 0.0 64 0.0 0.0 0.0 0.0 0.0 >>END_MODULE >>Kmer Content pass >>END_MODULE Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550452 spots for SRR9668913.sra Written 1550452 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra Read 1550438 spots for SRR9668913.sra Written 1550438 spots for SRR9668913.sra SRR ids: ['SRR9668913.sra'] extra args: ['--split-files', '--defline-qual', '+'] tempdir: /tmp/pfd_m8pd3mgh SRR9668913.sra spots: 31008774 blocks: [[1, 1550438], [1550439, 3100876], [3100877, 4651314], [4651315, 6201752], [6201753, 7752190], [7752191, 9302628], [9302629, 10853066], [10853067, 12403504], [12403505, 13953942], [13953943, 15504380], [15504381, 17054818], [17054819, 18605256], [18605257, 20155694], [20155695, 21706132], [21706133, 23256570], [23256571, 24807008], [24807009, 26357446], [26357447, 27907884], [27907885, 29458322], [29458323, 31008774]] SRR9668913 file size 5883995 SRR9668913 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 SRR9668913 SRR9668913_1.fastq SRR9668913_2.fastq Input file: SRR9668913_1.fastq Paired file: SRR9668913_2.fastq trimmed: SRR9668913-trimmed-pair1.fastq, SRR9668913-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 Wed Feb 12 16:29:27 2025 >> started Wed Feb 12 16:29:53 2025 >> done (25.519s) 31008774 read pairs processed; of these: 0 ( 0.00%) short read pairs filtered out after trimming by size control 174336 ( 0.56%) empty read pairs filtered out after trimming by size control 30834438 (99.44%) read pairs available; of these: 4461 ( 0.01%) trimmed read pairs available after processing 30829977 (99.99%) untrimmed read pairs available after processing Length distribution of reads after trimming: length count percentage 19 1 0.00% 20 1 0.00% 21 1 0.00% 22 2 0.00% 23 3 0.00% 24 7 0.00% 25 9 0.00% 26 8 0.00% 27 8 0.00% 28 19 0.00% 29 21 0.00% 30 27 0.00% 31 27 0.00% 32 26 0.00% 33 21 0.00% 34 36 0.00% 35 80 0.00% 36 101 0.00% 37 81 0.00% 38 119 0.00% 39 135 0.00% 40 143 0.00% 41 187 0.00% 42 184 0.00% 43 237 0.00% 44 231 0.00% 45 254 0.00% 46 237 0.00% 47 307 0.00% 48 323 0.00% 49 375 0.00% 50 482 0.00% 51 584 0.00% 52 627 0.00% 53 678 0.00% 54 661 0.00% 55 800 0.00% 56 1003 0.00% 57 1101 0.00% 58 1304 0.00% 59 1399 0.00% 60 1631 0.01% 61 1611 0.01% 62 1885 0.01% 63 1967 0.01% 64 2256 0.01% 65 2483 0.01% 66 2672 0.01% 67 2957 0.01% 68 3012 0.01% 69 3548 0.01% 70 4571 0.01% 71 7145 0.02% 72 22171 0.07% 73 254725 0.83% 74 2479321 8.04% 75 14771290 47.91% 76 13259343 43.00% 30834438 reads passed initial QC criterion=sequence-density sequence-density=0.56 sequence-density-rank=1 fanout-score=1.92 fanout-score-rank=29 prefix-density=0.55 prefix-fanout=1.9 sequence=CGGTAGACCCAACCTTTCTCCAACTCGAATTCCAAGCAAGGAACCCACTTGTTGCGAAGAAGGTACTCAATTTCCTGGGCCAATTGCTCAGTAGTGAGATCTGG criterion=fanout-score sequence-density=0.01 sequence-density-rank=35 fanout-score=16.93 fanout-score-rank=1 prefix-density=0.03 prefix-fanout=2.6 sequence=GGCAGCAAGGCCACTCTGCCACTTACAATACCCCGTCGCGTATTTAAGTCGTCTGCAAAGGATTCTACCCGCCGCTCGGTGGGAATTGTACTTCAAGGCGGCCCGCGCGGCTCTTTCACCGCGAGGGCTTGGCCAACGGCACGTGCCTCCGGGGCCAAGAGGCCCCTACTGCAGGTCGGCAATCGGACGGCGGGCGCACGCGTCGCATCTAGCCCGGATTCTGACTTAGAGGCGTTCAGTCATAATCCAACGCACGGTAGCTTCGCGCCACTGGCTTTTCAACCAAGCGCGATGACCAATTGTGCGAATCAACGGTTCCTCTCGTACTAGGTTGGATTACTATTGCGACACTGTCATCAGTAGGGTAAAACTAACCTGTCTCACGACGGTCTAAACCCAGCTCACGTTCCCTATTGGTGGGTGAACAATCCAACACTTGGTGAATTCTGCTTCACAATGATAGGAAGAGCCGACATCGAAGGATCAAAAAGCAACGTCGCTATGAACGCTT criterion=sequence-density sequence-density=0.45 sequence-density-rank=1 fanout-score=1.94 fanout-score-rank=27 prefix-density=0.45 prefix-fanout=1.9 sequence=TACCTTCTTCGC criterion=fanout-score sequence-density=0.02 sequence-density-rank=25 fanout-score=25.11 fanout-score-rank=1 prefix-density=0.16 prefix-fanout=3.1 sequence=CAAAACCACATATAGAGGGTGTAATAGCTAAGTAGCCTGTAAGAGATGGCTTCCTCTGTGATTTCATCGGCGGCCGTTGCCACAGTTAACCGCACCCC SRR9668913 testing PE reads STAR mapping to Ensembl genome Started job on | Feb 12 16:30:18 Started mapping on | Feb 12 16:30:18 Finished on | Feb 12 16:32:15 Mapping speed, Million of reads per hour | 948.75 Number of input reads | 30834438 Average input read length | 151 UNIQUE READS: Uniquely mapped reads number | 24855444 Uniquely mapped reads % | 80.61% Average mapped length | 150.43 Number of splices: Total | 10500812 Number of splices: Annotated (sjdb) | 10388130 Number of splices: GT/AG | 10299258 Number of splices: GC/AG | 173268 Number of splices: AT/AC | 7241 Number of splices: Non-canonical | 21045 Mismatch rate per base, % | 0.43% Deletion rate per base | 0.02% Deletion average length | 2.17 Insertion rate per base | 0.02% Insertion average length | 2.09 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 1400892 % of reads mapped to multiple loci | 4.54% Number of reads mapped to too many loci | 3309134 % of reads mapped to too many loci | 10.73% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 3.78% % of reads unmapped: other | 0.34% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 4578102 4578102 4578102 N_multimapping 1400892 1400892 1400892 N_noFeature 1301192 24496398 1395569 N_ambiguous 415013 1835 148790 UnstrandedReadsAssigned:23139239 PositiveStrandReadsAssigned:357211 NegativeStrandReadsAssigned:23311085 Dataset is classified negative stranded MeadianReadLen=76 20thPercentileLength=75 echo kmer=71 SRR9668913 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: SRR9668913-trimmed-pair1.fastq SRR9668913-trimmed-pair2.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 30,834,438 reads, 26,277,607 reads pseudoaligned [quant] estimated average fragment length: 193.474 [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,167 rounds 52401 SRR9668913.ke.tsv 34699 SRR9668913.se.tsv 87100 total ==> SRR9668913.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1825.53 296 4.90978 Potri.005G024800.1.v4.1 1035 842.526 142 5.10345 Potri.004G059700.1.v4.1 961 768.536 46 1.81239 Potri.007G009000.2.v4.1 1416 1223.53 0 0 Potri.003G141000.2.v4.1 2943 2750.53 367 4.04026 Potri.016G087400.1.v4.1 270 93.1683 1580.91 513.802 Potri.015G069301.1.v4.1 564 371.724 0 0 Potri.010G195200.1.v4.1 1773 1580.53 5 0.0957915 Potri.012G127500.1.v4.1 977 784.531 5341 206.144 ==> SRR9668913.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 24 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 312 Potri.001G212900.v4.1 0 Potri.001G182400.v4.1 4 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 75 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 12 SRR9668913 completed mapping pipeline successfully