Starting /dee2/code/volunteer_pipeline.sh SRR5423520 current disk space = 2796418781184 free memory = 1575041736 SRR5423520_1.fastq is conventional basespace SRR5423520_1.fastq read1 length is 52 nt ##FastQC 0.11.5 >>Basic Statistics pass #Measure Value Filename SRR5423520_1.fastq File type Conventional base calls Encoding Sanger / Illumina 1.9 Total Sequences 4000000 Sequences flagged as poor quality 0 Sequence length 52 %GC 49 >>END_MODULE >>Per base sequence quality pass #Base Mean Median Lower Quartile Upper Quartile 10th Percentile 90th Percentile 1 30.0 30.0 30.0 30.0 30.0 30.0 2 30.0 30.0 30.0 30.0 30.0 30.0 3 30.0 30.0 30.0 30.0 30.0 30.0 4 30.0 30.0 30.0 30.0 30.0 30.0 5 30.0 30.0 30.0 30.0 30.0 30.0 6 30.0 30.0 30.0 30.0 30.0 30.0 7 30.0 30.0 30.0 30.0 30.0 30.0 8 30.0 30.0 30.0 30.0 30.0 30.0 9 30.0 30.0 30.0 30.0 30.0 30.0 10 30.0 30.0 30.0 30.0 30.0 30.0 11 30.0 30.0 30.0 30.0 30.0 30.0 12 30.0 30.0 30.0 30.0 30.0 30.0 13 30.0 30.0 30.0 30.0 30.0 30.0 14 30.0 30.0 30.0 30.0 30.0 30.0 15 30.0 30.0 30.0 30.0 30.0 30.0 16 30.0 30.0 30.0 30.0 30.0 30.0 17 30.0 30.0 30.0 30.0 30.0 30.0 18 30.0 30.0 30.0 30.0 30.0 30.0 19 30.0 30.0 30.0 30.0 30.0 30.0 20 30.0 30.0 30.0 30.0 30.0 30.0 21 30.0 30.0 30.0 30.0 30.0 30.0 22 30.0 30.0 30.0 30.0 30.0 30.0 23 30.0 30.0 30.0 30.0 30.0 30.0 24 30.0 30.0 30.0 30.0 30.0 30.0 25 30.0 30.0 30.0 30.0 30.0 30.0 26 30.0 30.0 30.0 30.0 30.0 30.0 27 30.0 30.0 30.0 30.0 30.0 30.0 28 30.0 30.0 30.0 30.0 30.0 30.0 29 30.0 30.0 30.0 30.0 30.0 30.0 30 30.0 30.0 30.0 30.0 30.0 30.0 31 30.0 30.0 30.0 30.0 30.0 30.0 32 30.0 30.0 30.0 30.0 30.0 30.0 33 30.0 30.0 30.0 30.0 30.0 30.0 34 30.0 30.0 30.0 30.0 30.0 30.0 35 30.0 30.0 30.0 30.0 30.0 30.0 36 30.0 30.0 30.0 30.0 30.0 30.0 37 30.0 30.0 30.0 30.0 30.0 30.0 38 30.0 30.0 30.0 30.0 30.0 30.0 39 30.0 30.0 30.0 30.0 30.0 30.0 40 30.0 30.0 30.0 30.0 30.0 30.0 41 30.0 30.0 30.0 30.0 30.0 30.0 42 30.0 30.0 30.0 30.0 30.0 30.0 43 30.0 30.0 30.0 30.0 30.0 30.0 44 30.0 30.0 30.0 30.0 30.0 30.0 45 30.0 30.0 30.0 30.0 30.0 30.0 46 30.0 30.0 30.0 30.0 30.0 30.0 47 30.0 30.0 30.0 30.0 30.0 30.0 48 30.0 30.0 30.0 30.0 30.0 30.0 49 30.0 30.0 30.0 30.0 30.0 30.0 50 30.0 30.0 30.0 30.0 30.0 30.0 51 30.0 30.0 30.0 30.0 30.0 30.0 52 30.0 30.0 30.0 30.0 30.0 30.0 >>END_MODULE >>Per tile sequence quality pass #Tile Base Mean 1114 1 0.0 1114 2 0.0 1114 3 0.0 1114 4 0.0 1114 5 0.0 1114 6 0.0 1114 7 0.0 1114 8 0.0 1114 9 0.0 1114 10 0.0 1114 11 0.0 1114 12 0.0 1114 13 0.0 1114 14 0.0 1114 15 0.0 1114 16 0.0 1114 17 0.0 1114 18 0.0 1114 19 0.0 1114 20 0.0 1114 21 0.0 1114 22 0.0 1114 23 0.0 1114 24 0.0 1114 25 0.0 1114 26 0.0 1114 27 0.0 1114 28 0.0 1114 29 0.0 1114 30 0.0 1114 31 0.0 1114 32 0.0 1114 33 0.0 1114 34 0.0 1114 35 0.0 1114 36 0.0 1114 37 0.0 1114 38 0.0 1114 39 0.0 1114 40 0.0 1114 41 0.0 1114 42 0.0 1114 43 0.0 1114 44 0.0 1114 45 0.0 1114 46 0.0 1114 47 0.0 1114 48 0.0 1114 49 0.0 1114 50 0.0 1114 51 0.0 1114 52 0.0 1115 1 0.0 1115 2 0.0 1115 3 0.0 1115 4 0.0 1115 5 0.0 1115 6 0.0 1115 7 0.0 1115 8 0.0 1115 9 0.0 1115 10 0.0 1115 11 0.0 1115 12 0.0 1115 13 0.0 1115 14 0.0 1115 15 0.0 1115 16 0.0 1115 17 0.0 1115 18 0.0 1115 19 0.0 1115 20 0.0 1115 21 0.0 1115 22 0.0 1115 23 0.0 1115 24 0.0 1115 25 0.0 1115 26 0.0 1115 27 0.0 1115 28 0.0 1115 29 0.0 1115 30 0.0 1115 31 0.0 1115 32 0.0 1115 33 0.0 1115 34 0.0 1115 35 0.0 1115 36 0.0 1115 37 0.0 1115 38 0.0 1115 39 0.0 1115 40 0.0 1115 41 0.0 1115 42 0.0 1115 43 0.0 1115 44 0.0 1115 45 0.0 1115 46 0.0 1115 47 0.0 1115 48 0.0 1115 49 0.0 1115 50 0.0 1115 51 0.0 1115 52 0.0 1116 1 0.0 1116 2 0.0 1116 3 0.0 1116 4 0.0 1116 5 0.0 1116 6 0.0 1116 7 0.0 1116 8 0.0 1116 9 0.0 1116 10 0.0 1116 11 0.0 1116 12 0.0 1116 13 0.0 1116 14 0.0 1116 15 0.0 1116 16 0.0 1116 17 0.0 1116 18 0.0 1116 19 0.0 1116 20 0.0 1116 21 0.0 1116 22 0.0 1116 23 0.0 1116 24 0.0 1116 25 0.0 1116 26 0.0 1116 27 0.0 1116 28 0.0 1116 29 0.0 1116 30 0.0 1116 31 0.0 1116 32 0.0 1116 33 0.0 1116 34 0.0 1116 35 0.0 1116 36 0.0 1116 37 0.0 1116 38 0.0 1116 39 0.0 1116 40 0.0 1116 41 0.0 1116 42 0.0 1116 43 0.0 1116 44 0.0 1116 45 0.0 1116 46 0.0 1116 47 0.0 1116 48 0.0 1116 49 0.0 1116 50 0.0 1116 51 0.0 1116 52 0.0 1201 1 0.0 1201 2 0.0 1201 3 0.0 1201 4 0.0 1201 5 0.0 1201 6 0.0 1201 7 0.0 1201 8 0.0 1201 9 0.0 1201 10 0.0 1201 11 0.0 1201 12 0.0 1201 13 0.0 1201 14 0.0 1201 15 0.0 1201 16 0.0 1201 17 0.0 1201 18 0.0 1201 19 0.0 1201 20 0.0 1201 21 0.0 1201 22 0.0 1201 23 0.0 1201 24 0.0 1201 25 0.0 1201 26 0.0 1201 27 0.0 1201 28 0.0 1201 29 0.0 1201 30 0.0 1201 31 0.0 1201 32 0.0 1201 33 0.0 1201 34 0.0 1201 35 0.0 1201 36 0.0 1201 37 0.0 1201 38 0.0 1201 39 0.0 1201 40 0.0 1201 41 0.0 1201 42 0.0 1201 43 0.0 1201 44 0.0 1201 45 0.0 1201 46 0.0 1201 47 0.0 1201 48 0.0 1201 49 0.0 1201 50 0.0 1201 51 0.0 1201 52 0.0 1202 1 0.0 1202 2 0.0 1202 3 0.0 1202 4 0.0 1202 5 0.0 1202 6 0.0 1202 7 0.0 1202 8 0.0 1202 9 0.0 1202 10 0.0 1202 11 0.0 1202 12 0.0 1202 13 0.0 1202 14 0.0 1202 15 0.0 1202 16 0.0 1202 17 0.0 1202 18 0.0 1202 19 0.0 1202 20 0.0 1202 21 0.0 1202 22 0.0 1202 23 0.0 1202 24 0.0 1202 25 0.0 1202 26 0.0 1202 27 0.0 1202 28 0.0 1202 29 0.0 1202 30 0.0 1202 31 0.0 1202 32 0.0 1202 33 0.0 1202 34 0.0 1202 35 0.0 1202 36 0.0 1202 37 0.0 1202 38 0.0 1202 39 0.0 1202 40 0.0 1202 41 0.0 1202 42 0.0 1202 43 0.0 1202 44 0.0 1202 45 0.0 1202 46 0.0 1202 47 0.0 1202 48 0.0 1202 49 0.0 1202 50 0.0 1202 51 0.0 1202 52 0.0 1203 1 0.0 1203 2 0.0 1203 3 0.0 1203 4 0.0 1203 5 0.0 1203 6 0.0 1203 7 0.0 1203 8 0.0 1203 9 0.0 1203 10 0.0 1203 11 0.0 1203 12 0.0 1203 13 0.0 1203 14 0.0 1203 15 0.0 1203 16 0.0 1203 17 0.0 1203 18 0.0 1203 19 0.0 1203 20 0.0 1203 21 0.0 1203 22 0.0 1203 23 0.0 1203 24 0.0 1203 25 0.0 1203 26 0.0 1203 27 0.0 1203 28 0.0 1203 29 0.0 1203 30 0.0 1203 31 0.0 1203 32 0.0 1203 33 0.0 1203 34 0.0 1203 35 0.0 1203 36 0.0 1203 37 0.0 1203 38 0.0 1203 39 0.0 1203 40 0.0 1203 41 0.0 1203 42 0.0 1203 43 0.0 1203 44 0.0 1203 45 0.0 1203 46 0.0 1203 47 0.0 1203 48 0.0 1203 49 0.0 1203 50 0.0 1203 51 0.0 1203 52 0.0 1204 1 0.0 1204 2 0.0 1204 3 0.0 1204 4 0.0 1204 5 0.0 1204 6 0.0 1204 7 0.0 1204 8 0.0 1204 9 0.0 1204 10 0.0 1204 11 0.0 1204 12 0.0 1204 13 0.0 1204 14 0.0 1204 15 0.0 1204 16 0.0 1204 17 0.0 1204 18 0.0 1204 19 0.0 1204 20 0.0 1204 21 0.0 1204 22 0.0 1204 23 0.0 1204 24 0.0 1204 25 0.0 1204 26 0.0 1204 27 0.0 1204 28 0.0 1204 29 0.0 1204 30 0.0 1204 31 0.0 1204 32 0.0 1204 33 0.0 1204 34 0.0 1204 35 0.0 1204 36 0.0 1204 37 0.0 1204 38 0.0 1204 39 0.0 1204 40 0.0 1204 41 0.0 1204 42 0.0 1204 43 0.0 1204 44 0.0 1204 45 0.0 1204 46 0.0 1204 47 0.0 1204 48 0.0 1204 49 0.0 1204 50 0.0 1204 51 0.0 1204 52 0.0 1205 1 0.0 1205 2 0.0 1205 3 0.0 1205 4 0.0 1205 5 0.0 1205 6 0.0 1205 7 0.0 1205 8 0.0 1205 9 0.0 1205 10 0.0 1205 11 0.0 1205 12 0.0 1205 13 0.0 1205 14 0.0 1205 15 0.0 1205 16 0.0 1205 17 0.0 1205 18 0.0 1205 19 0.0 1205 20 0.0 1205 21 0.0 1205 22 0.0 1205 23 0.0 1205 24 0.0 1205 25 0.0 1205 26 0.0 1205 27 0.0 1205 28 0.0 1205 29 0.0 1205 30 0.0 1205 31 0.0 1205 32 0.0 1205 33 0.0 1205 34 0.0 1205 35 0.0 1205 36 0.0 1205 37 0.0 1205 38 0.0 1205 39 0.0 1205 40 0.0 1205 41 0.0 1205 42 0.0 1205 43 0.0 1205 44 0.0 1205 45 0.0 1205 46 0.0 1205 47 0.0 1205 48 0.0 1205 49 0.0 1205 50 0.0 1205 51 0.0 1205 52 0.0 1206 1 0.0 1206 2 0.0 1206 3 0.0 1206 4 0.0 1206 5 0.0 1206 6 0.0 1206 7 0.0 1206 8 0.0 1206 9 0.0 1206 10 0.0 1206 11 0.0 1206 12 0.0 1206 13 0.0 1206 14 0.0 1206 15 0.0 1206 16 0.0 1206 17 0.0 1206 18 0.0 1206 19 0.0 1206 20 0.0 1206 21 0.0 1206 22 0.0 1206 23 0.0 1206 24 0.0 1206 25 0.0 1206 26 0.0 1206 27 0.0 1206 28 0.0 1206 29 0.0 1206 30 0.0 1206 31 0.0 1206 32 0.0 1206 33 0.0 1206 34 0.0 1206 35 0.0 1206 36 0.0 1206 37 0.0 1206 38 0.0 1206 39 0.0 1206 40 0.0 1206 41 0.0 1206 42 0.0 1206 43 0.0 1206 44 0.0 1206 45 0.0 1206 46 0.0 1206 47 0.0 1206 48 0.0 1206 49 0.0 1206 50 0.0 1206 51 0.0 1206 52 0.0 1207 1 0.0 1207 2 0.0 1207 3 0.0 1207 4 0.0 1207 5 0.0 1207 6 0.0 1207 7 0.0 1207 8 0.0 1207 9 0.0 1207 10 0.0 1207 11 0.0 1207 12 0.0 1207 13 0.0 1207 14 0.0 1207 15 0.0 1207 16 0.0 1207 17 0.0 1207 18 0.0 1207 19 0.0 1207 20 0.0 1207 21 0.0 1207 22 0.0 1207 23 0.0 1207 24 0.0 1207 25 0.0 1207 26 0.0 1207 27 0.0 1207 28 0.0 1207 29 0.0 1207 30 0.0 1207 31 0.0 1207 32 0.0 1207 33 0.0 1207 34 0.0 1207 35 0.0 1207 36 0.0 1207 37 0.0 1207 38 0.0 1207 39 0.0 1207 40 0.0 1207 41 0.0 1207 42 0.0 1207 43 0.0 1207 44 0.0 1207 45 0.0 1207 46 0.0 1207 47 0.0 1207 48 0.0 1207 49 0.0 1207 50 0.0 1207 51 0.0 1207 52 0.0 1208 1 0.0 1208 2 0.0 1208 3 0.0 1208 4 0.0 1208 5 0.0 1208 6 0.0 1208 7 0.0 1208 8 0.0 1208 9 0.0 1208 10 0.0 1208 11 0.0 1208 12 0.0 1208 13 0.0 1208 14 0.0 1208 15 0.0 1208 16 0.0 1208 17 0.0 1208 18 0.0 1208 19 0.0 1208 20 0.0 1208 21 0.0 1208 22 0.0 1208 23 0.0 1208 24 0.0 1208 25 0.0 1208 26 0.0 1208 27 0.0 1208 28 0.0 1208 29 0.0 1208 30 0.0 1208 31 0.0 1208 32 0.0 1208 33 0.0 1208 34 0.0 1208 35 0.0 1208 36 0.0 1208 37 0.0 1208 38 0.0 1208 39 0.0 1208 40 0.0 1208 41 0.0 1208 42 0.0 1208 43 0.0 1208 44 0.0 1208 45 0.0 1208 46 0.0 1208 47 0.0 1208 48 0.0 1208 49 0.0 1208 50 0.0 1208 51 0.0 1208 52 0.0 1209 1 0.0 1209 2 0.0 1209 3 0.0 1209 4 0.0 1209 5 0.0 1209 6 0.0 1209 7 0.0 1209 8 0.0 1209 9 0.0 1209 10 0.0 1209 11 0.0 1209 12 0.0 1209 13 0.0 1209 14 0.0 1209 15 0.0 1209 16 0.0 1209 17 0.0 1209 18 0.0 1209 19 0.0 1209 20 0.0 1209 21 0.0 1209 22 0.0 1209 23 0.0 1209 24 0.0 1209 25 0.0 1209 26 0.0 1209 27 0.0 1209 28 0.0 1209 29 0.0 1209 30 0.0 1209 31 0.0 1209 32 0.0 1209 33 0.0 1209 34 0.0 1209 35 0.0 1209 36 0.0 1209 37 0.0 1209 38 0.0 1209 39 0.0 1209 40 0.0 1209 41 0.0 1209 42 0.0 1209 43 0.0 1209 44 0.0 1209 45 0.0 1209 46 0.0 1209 47 0.0 1209 48 0.0 1209 49 0.0 1209 50 0.0 1209 51 0.0 1209 52 0.0 1210 1 0.0 1210 2 0.0 1210 3 0.0 1210 4 0.0 1210 5 0.0 1210 6 0.0 1210 7 0.0 1210 8 0.0 1210 9 0.0 1210 10 0.0 1210 11 0.0 1210 12 0.0 1210 13 0.0 1210 14 0.0 1210 15 0.0 1210 16 0.0 1210 17 0.0 1210 18 0.0 1210 19 0.0 1210 20 0.0 1210 21 0.0 1210 22 0.0 1210 23 0.0 1210 24 0.0 1210 25 0.0 1210 26 0.0 1210 27 0.0 1210 28 0.0 1210 29 0.0 1210 30 0.0 1210 31 0.0 1210 32 0.0 1210 33 0.0 1210 34 0.0 1210 35 0.0 1210 36 0.0 1210 37 0.0 1210 38 0.0 1210 39 0.0 1210 40 0.0 1210 41 0.0 1210 42 0.0 1210 43 0.0 1210 44 0.0 1210 45 0.0 1210 46 0.0 1210 47 0.0 1210 48 0.0 1210 49 0.0 1210 50 0.0 1210 51 0.0 1210 52 0.0 1211 1 0.0 1211 2 0.0 1211 3 0.0 1211 4 0.0 1211 5 0.0 1211 6 0.0 1211 7 0.0 1211 8 0.0 1211 9 0.0 1211 10 0.0 1211 11 0.0 1211 12 0.0 1211 13 0.0 1211 14 0.0 1211 15 0.0 1211 16 0.0 1211 17 0.0 1211 18 0.0 1211 19 0.0 1211 20 0.0 1211 21 0.0 1211 22 0.0 1211 23 0.0 1211 24 0.0 1211 25 0.0 1211 26 0.0 1211 27 0.0 1211 28 0.0 1211 29 0.0 1211 30 0.0 1211 31 0.0 1211 32 0.0 1211 33 0.0 1211 34 0.0 1211 35 0.0 1211 36 0.0 1211 37 0.0 1211 38 0.0 1211 39 0.0 1211 40 0.0 1211 41 0.0 1211 42 0.0 1211 43 0.0 1211 44 0.0 1211 45 0.0 1211 46 0.0 1211 47 0.0 1211 48 0.0 1211 49 0.0 1211 50 0.0 1211 51 0.0 1211 52 0.0 1212 1 0.0 1212 2 0.0 1212 3 0.0 1212 4 0.0 1212 5 0.0 1212 6 0.0 1212 7 0.0 1212 8 0.0 1212 9 0.0 1212 10 0.0 1212 11 0.0 1212 12 0.0 1212 13 0.0 1212 14 0.0 1212 15 0.0 1212 16 0.0 1212 17 0.0 1212 18 0.0 1212 19 0.0 1212 20 0.0 1212 21 0.0 1212 22 0.0 1212 23 0.0 1212 24 0.0 1212 25 0.0 1212 26 0.0 1212 27 0.0 1212 28 0.0 1212 29 0.0 1212 30 0.0 1212 31 0.0 1212 32 0.0 1212 33 0.0 1212 34 0.0 1212 35 0.0 1212 36 0.0 1212 37 0.0 1212 38 0.0 1212 39 0.0 1212 40 0.0 1212 41 0.0 1212 42 0.0 1212 43 0.0 1212 44 0.0 1212 45 0.0 1212 46 0.0 1212 47 0.0 1212 48 0.0 1212 49 0.0 1212 50 0.0 1212 51 0.0 1212 52 0.0 >>END_MODULE >>Per sequence quality scores pass #Quality Count 30 4000000.0 >>END_MODULE >>Per base sequence content fail #Base G A T C 1 46.721968420891656 13.170588505160442 5.779007411310829 34.32843566263707 2 22.705075 15.675724999999998 34.58695 27.03225 3 18.92455 21.5601 27.13265 32.3827 4 24.242175 28.448574999999998 23.394225 23.915025 5 23.632275 32.71845 23.07655 20.572725 6 20.197275 31.685550000000003 24.076825 24.04035 7 16.187525 21.312175 41.87945 20.620849999999997 8 18.409075 20.19 30.366925000000002 31.034 9 18.71425 19.677675 32.391475 29.2166 10 20.122825 35.096225 23.599575 21.181375 11 25.0709 24.494125 20.444925 29.99005 12 23.0674 21.089825 25.825625000000002 30.017149999999997 13 20.9113 25.106424999999998 28.1984 25.783875000000002 14 21.316425 24.861449999999998 27.5873 26.234825 15 21.851375 24.330025 26.658175 27.160425 16 22.404 24.9805 26.046875000000004 26.568625 17 22.22605 24.75195 26.537699999999997 26.4843 18 22.201225 24.27715 26.200200000000002 27.321424999999998 19 22.5492 25.298175 25.990125 26.1625 20 22.445625 24.974674999999998 26.374025 26.205675 21 22.207272207272208 24.515499515499513 26.35010135010135 26.927126927126928 22 22.546374999999998 25.293325 25.8741 26.286199999999997 23 22.257325 24.75675 26.200225 26.785700000000002 24 21.9822 24.472525 26.1831 27.362175 25 22.749475 24.656824999999998 25.871899999999997 26.7218 26 22.33715 24.367625 26.5312 26.764025000000004 27 21.739649999999997 24.551275 26.454775 27.254299999999997 28 22.61225 24.78945 25.8891 26.7092 29 22.419219917128633 24.798784179938966 26.231207814928947 26.55078808800345 30 21.855450868505834 24.30448780931723 26.390161850745702 27.449899471431237 31 22.359612558086162 25.01874432638804 25.749366793028887 26.87227632249692 32 22.57032842015777 24.645563765017688 26.404805660778358 26.37930215404618 33 22.193051216368435 24.175971175712387 26.498466646913727 27.13251096100545 34 22.308389928555123 24.81112352715108 26.035360626228492 26.845125918065303 35 22.695702895780553 24.532840023132042 26.133881315026052 26.637575766061357 36 22.280084071071908 24.545412954015163 25.671052305916902 27.50345066899603 37 22.576774999999998 24.95675 25.442925 27.02355 38 22.707649999999997 24.303050000000002 25.96565 27.02365 39 22.27025 24.1258 25.792274999999997 27.811675 40 22.817675 25.030825 25.36765 26.783849999999997 41 22.79985 24.69045 25.815575000000003 26.694125000000003 42 22.515916886937664 24.220243165182374 26.11976958982719 27.14407035805277 43 23.173550000000002 24.559800000000003 25.687375000000003 26.579275000000003 44 22.80565 24.331 26.4943 26.369049999999998 45 22.663511331755664 24.174087087043546 25.810587905293954 27.35181367590684 46 23.11571332281285 24.55422949455675 25.548275220660148 26.781781961970253 47 22.965720570032992 24.253052328524724 25.975011368809685 26.806215732632598 48 22.34934260021137 23.83855870343715 25.837723124266027 27.974375572085453 49 22.96441821108763 24.26984967099827 25.707686857456586 27.058045260457515 50 22.60405913570546 24.238808925508344 26.103944255449683 27.05318768333651 51 22.194375 23.7574 26.040425 28.0078 52 23.05173262933157 24.25406063515159 25.489113722784307 27.205093012732533 >>END_MODULE >>Per sequence GC content pass #GC Content Count 0 23.0 1 15.5 2 8.0 3 10.0 4 12.0 5 11.5 6 11.0 7 21.5 8 32.0 9 54.0 10 76.0 11 98.0 12 120.0 13 184.0 14 321.5 15 395.0 16 572.0 17 749.0 18 1078.5 19 1408.0 20 1898.5 21 2389.0 22 3200.5 23 4012.0 24 5324.5 25 6637.0 26 8987.0 27 11337.0 28 15759.0 29 20181.0 30 25343.5 31 30506.0 32 38212.0 33 45918.0 34 56918.0 35 67918.0 36 85345.5 37 102773.0 38 116652.0 39 153618.0 40 176705.0 41 205925.0 42 235145.0 43 265590.5 44 296036.0 45 319002.5 46 341969.0 47 364708.5 48 387448.0 49 389636.5 50 391825.0 51 394721.5 52 397618.0 53 378705.5 54 359793.0 55 333124.5 56 306456.0 57 267453.0 58 228450.0 59 192170.5 60 155891.0 61 129927.0 62 103963.0 63 79505.0 64 50172.0 65 45297.0 66 35835.0 67 26373.0 68 23911.5 69 21450.0 70 18534.0 71 15618.0 72 14654.5 73 13691.0 74 10573.5 75 7456.0 76 5537.5 77 3619.0 78 3203.0 79 2787.0 80 1894.5 81 1002.0 82 740.5 83 479.0 84 364.5 85 250.0 86 215.0 87 180.0 88 129.0 89 66.5 90 55.0 91 39.0 92 23.0 93 15.0 94 7.0 95 4.0 96 1.0 97 1.5 98 2.0 99 2.0 100 2.0 >>END_MODULE >>Per base N content pass #Base N-Count 1 0.277425 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 0.0 20 0.0 21 9.999999999999999E-5 22 0.0 23 0.0 24 0.0 25 0.0 26 0.0 27 0.0 28 0.0 29 0.0016500000000000002 30 0.00355 31 0.003075 32 0.01375 33 0.014875000000000001 34 0.017325 35 0.008825 36 0.001275 37 0.0 38 0.0 39 0.0 40 0.0 41 0.0 42 7.500000000000001E-5 43 0.0 44 0.0 45 4.9999999999999996E-5 46 0.0046 47 5.25E-4 48 0.009475 49 0.004325 50 0.004575 51 0.0 52 2.5E-4 >>END_MODULE >>Sequence Length Distribution pass #Length Count 52 4000000.0 >>END_MODULE >>Sequence Duplication Levels fail #Total Deduplicated Percentage 43.824940188750226 #Duplication Level Percentage of deduplicated Percentage of total 1 77.75926417769993 34.07795101708928 2 10.954293831026357 9.601425439094514 3 3.9592730677343457 5.20544716153162 4 1.9781134141266223 3.4676280824265495 5 1.152402704604372 2.52519898013203 6 0.7431903654444094 1.9542163988674002 7 0.5218280758047276 1.6008358947666965 8 0.38754950137152194 1.358746697422954 9 0.30124596834606343 1.1881877890381538 >10 1.8866276617456785 15.801891755207798 >50 0.1998970590592799 6.159005798211735 >100 0.1434261036064962 11.883708694580887 >500 0.00931120435945506 2.8393718398217067 >1k 0.0035768650707303524 2.33638445180861 >5k 0.0 0.0 >10k+ 0.0 0.0 >>END_MODULE >>Overrepresented sequences pass >>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 2.25E-4 0.0 0.0 0.0 0.0 2 3.25E-4 0.0 0.0 0.0 0.0 3 5.5E-4 0.0 0.0 0.0 0.0 4 0.001125 0.0 0.0 0.0 0.0 5 0.00135 0.0 0.0 0.0 0.0 6 0.00145 0.0 0.0 0.0 0.0 7 0.001625 0.0 0.0 0.0 0.0 8 0.001775 0.0 0.0 0.0 0.0 9 0.002 0.0 0.0 0.0 0.0 10 0.00245 0.0 0.0 0.0 0.0 11 0.002525 0.0 0.0 0.0 0.0 12 0.002775 0.0 0.0 0.0 0.0 13 0.0029 0.0 0.0 0.0 0.0 14 0.003225 0.0 0.0 0.0 0.0 15 0.003425 0.0 0.0 0.0 0.0 16 0.00395 0.0 0.0 0.0 0.0 17 0.004125 0.0 0.0 0.0 0.0 18 0.004275 2.5E-5 0.0 0.0 0.0 19 0.0045 5.0E-5 0.0 0.0 0.0 20 0.00465 5.0E-5 0.0 0.0 0.0 21 0.00485 5.0E-5 0.0 0.0 0.0 22 0.004925 5.0E-5 0.0 0.0 0.0 23 0.004975 5.0E-5 0.0 0.0 0.0 24 0.00505 5.0E-5 0.0 0.0 0.0 25 0.0051 5.0E-5 0.0 0.0 0.0 26 0.00515 5.0E-5 0.0 0.0 0.0 27 0.005225 5.0E-5 0.0 0.0 0.0 28 0.005425 5.0E-5 0.0 0.0 0.0 29 0.005475 5.0E-5 0.0 0.0 0.0 30 0.005575 5.0E-5 0.0 0.0 0.0 31 0.005825 5.0E-5 0.0 0.0 0.0 32 0.00595 5.0E-5 0.0 0.0 0.0 33 0.0062 5.0E-5 0.0 0.0 0.0 34 0.00645 5.0E-5 0.0 0.0 0.0 35 0.006725 5.0E-5 0.0 0.0 0.0 36 0.00705 5.0E-5 0.0 0.0 0.0 37 0.00745 5.0E-5 0.0 0.0 0.0 38 0.007775 5.0E-5 0.0 0.0 0.0 39 0.0083 5.0E-5 0.0 0.0 0.0 40 0.008875 5.0E-5 0.0 0.0 0.0 >>END_MODULE >>Kmer Content warn #Sequence Count PValue Obs/Exp Max Max Obs/Exp Position GTGCGCG 65 3.5918222E-4 21.286491 1 GTCGCGT 510 0.0 19.895216 1 TCGCGTA 470 0.0 19.083054 2 GCGCTAT 115 2.7305032E-6 18.047243 1 GCGGAGT 550 0.0 17.979883 38 CGCGTAT 520 0.0 17.248144 3 CGAACGT 280 0.0 16.428446 27 ACGGATA 1235 0.0 16.01447 16 TATACGG 430 0.0 15.509958 13 CCTAGAT 580 0.0 15.506108 1 GGCGTTA 405 0.0 15.332258 25 CGTTAGG 410 0.0 15.146227 27 CGGAGTC 635 0.0 14.848795 39 CGCGAGG 420 0.0 14.785601 40 GCAACGT 360 0.0 14.6928625 22 CTCGCGA 365 0.0 14.493946 45 GTACGTC 160 4.0085542E-6 14.37507 34 GTCGAAT 1720 0.0 14.211619 1 GATACGG 955 0.0 14.207895 13 GTCGCTA 340 0.0 14.205773 27 >>END_MODULE skewer v0.2.2 [April 4, 2016] COMMAND LINE: skewer -f sanger -l 18 -q 10 -k inf -t 20 -o SRR5423520 SRR5423520_1.fastq Input file: SRR5423520_1.fastq trimmed: SRR5423520-trimmed.fastq Parameters used: -- 3' end adapter sequence (-x): AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -- 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 -- minimum overlap length for adapter detection (-k): inf -- number of concurrent threads (-t): 20 Tue Apr 15 04:20:37 2025 >> started Tue Apr 15 04:20:39 2025 >> done (1.793s) 4000000 reads processed; of these: 164 ( 0.00%) short reads filtered out after trimming by size control 87 ( 0.00%) empty reads filtered out after trimming by size control 3999749 (99.99%) reads available; of these: 21 ( 0.00%) trimmed reads available after processing 3999728 (100.00%) untrimmed reads available after processing Length distribution of reads after trimming: length count percentage 18 9 0.00% 19 5 0.00% 20 7 0.00% 21 0 0.00% 22 0 0.00% 23 0 0.00% 24 0 0.00% 25 0 0.00% 26 0 0.00% 27 0 0.00% 28 0 0.00% 29 0 0.00% 30 0 0.00% 31 0 0.00% 32 0 0.00% 33 0 0.00% 34 0 0.00% 35 0 0.00% 36 0 0.00% 37 0 0.00% 38 0 0.00% 39 0 0.00% 40 0 0.00% 41 0 0.00% 42 0 0.00% 43 0 0.00% 44 0 0.00% 45 0 0.00% 46 0 0.00% 47 0 0.00% 48 0 0.00% 49 0 0.00% 50 0 0.00% 51 0 0.00% 52 3999728 100.00% 3999749 reads passed initial QC criterion=sequence-density sequence-density=0.21 sequence-density-rank=1 fanout-score=1.98 fanout-score-rank=27 prefix-density=0.21 prefix-fanout=2.0 sequence=CCGTCAATTCCTTT criterion=fanout-score sequence-density=0.01 sequence-density-rank=41 fanout-score=12.82 fanout-score-rank=1 prefix-density=0.03 prefix-fanout=2.6 sequence=CTTCCCTCTAAGCGGAACGCTCCCCTACCGATGCATTTTTACATCCCACAGCTTCGGCAGATCGCTTAGCCCCGTTCATCTTCGGCGCAAGAGCGCTCGATCAGTGAGCTATTACGCACTCTTTCAAGGGTGGCTGCTTCTAGGCAAACCTCCTGGCTGTCTCTGCACCCCTACCTCCTTTATCACTGAGCGGTCATTTAGGGGCCTTAGCTGGTGATCCGGGCTGTTTCCCTCTCGACGATGAAGCTTATCCCCCACCGTCTCACTGGCCGACCTTGACCCCTGTTATTTTGAGGTCATATCTAGTATTCAGAGTTTGCCTCGATTTGGTACCGCTCTCGCGGCCCGCACCGAAACAGTGCTTTACCCCTAGATGTCCAGTCAACTGCTGCGCCTCAACGCATTTCGGGGAGAACCAGCTAGCTCTGGGTTCGAGTGGCATTTCACCCCTAACCACAACTCATCCGCTGATTCTTCAACATCAGTCGGTTCGGACCTCCACTTAGTTTCA Started job on | Apr 15 04:20:58 Started mapping on | Apr 15 04:20:58 Finished on | Apr 15 04:21:03 Mapping speed, Million of reads per hour | 2879.82 Number of input reads | 3999749 Average input read length | 51 UNIQUE READS: Uniquely mapped reads number | 3263643 Uniquely mapped reads % | 81.60% Average mapped length | 51.85 Number of splices: Total | 435161 Number of splices: Annotated (sjdb) | 430344 Number of splices: GT/AG | 427706 Number of splices: GC/AG | 6774 Number of splices: AT/AC | 219 Number of splices: Non-canonical | 462 Mismatch rate per base, % | 0.30% Deletion rate per base | 0.01% Deletion average length | 1.55 Insertion rate per base | 0.00% Insertion average length | 1.37 MULTI-MAPPING READS: Number of reads mapped to multiple loci | 305257 % of reads mapped to multiple loci | 7.63% Number of reads mapped to too many loci | 402290 % of reads mapped to too many loci | 10.06% UNMAPPED READS: % of reads unmapped: too many mismatches | 0.00% % of reads unmapped: too short | 0.71% % of reads unmapped: other | 0.00% CHIMERIC READS: Number of chimeric reads | 0 % of chimeric reads | 0.00% N_unmapped 430849 430849 430849 N_multimapping 305257 305257 305257 N_noFeature 221639 3215441 238693 N_ambiguous 44895 38 13732 UnstrandedReadsAssigned:2997109 PositiveStrandReadsAssigned:48164 NegativeStrandReadsAssigned:3011218 Dataset is classified negative stranded MeadianReadLen=52 20thPercentileLength=52 echo kmer=47 SRR5423520 Starting Kallisto single end mapping to ensembl reference transcriptome. kmer=31 [quant] fragment length distribution is truncated gaussian with mean = 100, sd = 20 [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 single-end mode [quant] will process file 1: SRR5423520-trimmed.fastq [quant] finding pseudoalignments for the reads ... done [quant] processed 3,999,749 reads, 3,423,597 reads pseudoaligned [ em] quantifying the abundances ... done [ em] the Expectation-Maximization algorithm ran for 1,111 rounds 52401 SRR5423520.ke.tsv 34699 SRR5423520.se.tsv 87100 total ==> SRR5423520.ke.tsv <== target_id length eff_length est_counts tpm Potri.005G200100.1.v4.1 2018 1919 70 11.34 Potri.005G024800.1.v4.1 1035 936 9 2.98922 Potri.004G059700.1.v4.1 961 862 10 3.60649 Potri.007G009000.2.v4.1 1416 1317 0 0 Potri.003G141000.2.v4.1 2943 2844 38.3599 4.19314 Potri.016G087400.1.v4.1 270 171 94 170.893 Potri.015G069301.1.v4.1 564 465 0 0 Potri.010G195200.1.v4.1 1773 1674 0 0 Potri.012G127500.1.v4.1 977 878 32 11.3305 ==> SRR5423520.se.tsv <== Potri.001G166300.v4.1 0 Potri.001G448400.v4.1 8 Potri.001G233950.v4.1 0 Potri.001G122700.v4.1 54 Potri.001G212900.v4.1 49 Potri.001G182400.v4.1 0 Potri.001G256600.v4.1 0 Potri.001G040500.v4.1 2 Potri.001G416900.v4.1 0 Potri.001G452600.v4.1 2 SRR5423520 completed mapping pipeline successfully