| ../asm.correctedReads.fasta.gz | |
| Parameters | preset = N/A |
| defaultQV = 20 | |
| isNonRandom = false | |
| removeDuplicateReads = true | |
| finalTrim = true | |
| removeSpurReads = true | |
| removeChimericReads = true | |
| checkForSubReads = true | |
| FASTA | 253 reads (3376179 bp) |
| 0 reads (0 bp) were short and not loaded | |
| FASTQ | 0 reads (0 bp) |
| 0 reads (0 bp) were short and not loaded | |
| 253 reads (3376179 bp) loaded, 0 reads (0 bp) skipped, 0 warnings | |
| trimming/asm.gkpStore | |
| readsLoaded | 253 reads (3376179 bp) |
| readsSkipped | 0 reads (0 bp) (read was too short) |
| warnings | 0 warnings (invalid base or quality value) |
Image 'trimming/asm.gkpStore/readlengths' not found.
Image 'trimming/0-mercounts/asm.ms22.histogram' not found.
No statistics available for store 'trimming/asm.ovlStore'.
| PARAMETERS | |
|---|---|
| 1000 | reads trimmed below this many bases are deleted |
| 0.0450 | use overlaps at or below this fraction error |
| 1 | break region if overlap is less than this long, for 'largest covered' algorithm |
| 1 | break region if overlap coverage is less than this many read, for 'largest covered' algorithm |
| INPUT READS | ||
|---|---|---|
| reads | bases | |
| 253 | 3376179 | reads processed |
| 0 | 0 | reads not processed, previously deleted |
| 0 | 0 | reads not processed, in a library where trimming isn't allowed |
| OUTPUT READS | ||
| reads | bases | |
| 223 | 2887869 | trimmed reads output |
| 14 | 173546 | reads with no change, kept as is |
| 7 | 37671 | reads with no overlaps, deleted |
| 9 | 76960 | reads with short trimmed length, deleted |
| TRIMMING DETAILS | ||
| reads | bases | |
| 143 | 90029 | bases trimmed from the 5' end of a read |
| 216 | 110104 | bases trimmed from the 3' end of a read |
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.inputDeletedReads' not found.
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.inputNoTrimReads' not found.
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.inputReads' not found.
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.outputDeletedReads' not found.
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.outputNoOvlReads' not found.
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.outputTrimmedReads' not found.
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.outputUnchangedReads' not found.
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.trim3' not found.
Image 'trimming/3-overlapbasedtrimming/asm.1.trimReads.trim5' not found.
| PARAMETERS | |
|---|---|
| 1000 | reads trimmed below this many bases are deleted |
| 0.0450 | use overlaps at or below this fraction error |
| INPUT READS | ||
|---|---|---|
| reads | bases | |
| 237 | 3261548 | reads processed |
| 16 | 114631 | reads not processed, previously deleted |
| 0 | 0 | reads not processed, in a library where trimming isn't allowed |
| PROCESSED | ||
| reads | bases | |
| 0 | 0 | no overlaps |
| 0 | 0 | no coverage after adjusting for trimming done already |
| 0 | 0 | processed for chimera |
| 0 | 0 | processed for spur |
| 237 | 3261548 | processed for subreads |
| READS WITH SIGNALS | ||
| reads | signals | |
| 0 | 0 | number of 5' spur signal |
| 0 | 0 | number of 3' spur signal |
| 0 | 0 | number of chimera signal |
| 0 | 0 | number of subread signal |
| SIGNALS | ||
| reads | bases | |
| 0 | 0 | size of 5' spur signal |
| 0 | 0 | size of 3' spur signal |
| 0 | 0 | size of chimera signal |
| 0 | 0 | size of subread signal |
| TRIMMING | ||
| reads | bases | |
| 0 | 0 | trimmed from the 5' end of the read |
| 0 | 0 | trimmed from the 3' end of the read |