Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A3 F53 I1 R1 62 81.2 3465250 98.6% 3416736 145.3

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CGACATCCTGGCGATCACCAAACGTATCAATGGTGGTAGCAACGGTCTGGAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGCGCACGGTCTGGAGCGGGAGAAGGCTGCAGCAGCAGCG  >  NC_002947_CJ‑RC/3447142‑3447432
                                                                                                                                                |                                                                                                                                                  
CGACATCCTGGCGATCACCAAACGTATCAATGGTGGTAGCAACGGTCTGGAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTG                                                                                                                                              >  NB501016:282:H2V7GAFX2:3:21604:6935:2525/1‑151 (MQ=60)
                 CCAAACGTATCAATGGTGGTAGCAACGGTCTGGAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCCGCC                                                                                                                             >  NB501016:282:H2V7GAFX2:1:21303:12117:4442/1‑151 (MQ=60)
                    AACGTATCAATGGTGGTAGCAACGGTCTGGAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCCGCGCTGGCGGCGCCCGGGCAGCCTGG                                                                                                                          >  NB501016:282:H2V7GAFX2:4:21503:15664:4156/1‑151 (MQ=60)
                       GTATCAATGGTGGTAGCAACGGTCTGGAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGATGGCGGCGCCCGGGCAGCCTGGGTG                                                                                                                       >  NB501016:282:H2V7GAFX2:2:21208:3287:2843/1‑151 (MQ=60)
                              tgggcgtcgcaccggtctggagcctcgcaacgcccccaacccgcgcgcgggcgcggggctgccgggcgggcgTGGGCCACCCGCCTGGGCGCGGGGGCGCTGCTGCGGGCCGCCTGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAG                                                                                                                 <  NB501016:282:H2V7GAFX2:1:21304:15182:6121/78‑1 (MQ=60)
                              TGGTGGCAGCACCGGGCTGGAGGATCGCAAGGCCCTCTACACGCGCGCGCTCGCGGTGCTGCAGGGCGCGCGTGGGCCCCCCGCCTGGGCGCGGGGGCGCTGCTGCGGGCCGCCAGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAG                                                                                                                 <  NB501016:282:H2V7GAFX2:3:11409:18556:5072/150‑1 (MQ=60)
                                   gcagcaccggtctggccgatcccaaggccctcaaccagcgcgcggtcgcggggccgcagcgagcgcctggcccccccgccggggcggcgtggcgcggcggcgGGCCGCCAGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAAC                                                                                                           <  NB501016:282:H2V7GAFX2:2:11301:10674:3422/49‑1 (MQ=60)
                                      GCAACGGTCTGGAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCGGGGTGTGGCGGGCCAACGCC                                                                                                        >  NB501016:282:H2V7GAFX2:3:21603:7353:6866/1‑151 (MQ=60)
                                        AACGGTCTGGAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCT                                                                                                       >  NB501016:282:H2V7GAFX2:3:11401:10186:16894/1‑150 (MQ=60)
                                                 GAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGC                                                                                              >  NB501016:282:H2V7GAFX2:4:11612:15070:18371/1‑150 (MQ=60)
                                                        ccaagcccctctacacgcgtgcgcgggcggtggTGCAGTGTGCGCGTGGGCCACCCGCGGGGTCGGCGGGGCGCTGCTGCTGGCCGCCCGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCT                                                                                      <  NB501016:282:H2V7GAFX2:2:21306:20345:15866/118‑1 (MQ=60)
                                                        ccaagccccacaccccgggcgcgctggcggtgctgctgtgcgggggcgcgccccccgcgtgggggcggtgggggtggggctgcCCGCCCGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCT                                                                                      <  NB501016:282:H2V7GAFX2:2:11203:23332:3933/68‑1 (MQ=60)
                                                        GCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCCGCGCGGGCGGCGCCCGGGCAGCCGCGGGGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCG                                                                                      >  NB501016:282:H2V7GAFX2:2:21309:19051:4971/1‑151 (MQ=60)
                                                        GCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCT                                                                                      >  NB501016:282:H2V7GAFX2:4:21601:12397:16170/1‑151 (MQ=60)
                                                              cccccaacccgcgcgcgcgcgtggggctgcagtgcgcgcgggccccccccgcgggggcgccggggcgctgcggcgcGCCGCCAGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAG                                                                                <  NB501016:282:H2V7GAFX2:3:21501:9623:12983/75‑1 (MQ=60)
                                                              CCCTCTCCACGCGCGCGCTCGTGGTGCTGCCGGGCGCGCTGGGGCCCCCCGCCGGGGCGCCGTGGCGCGGCGGCGGGCCGCCCGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGC                                                                                                <  NB501016:282:H2V7GAFX2:1:21310:14395:6556/135‑1 (MQ=51)
                                                                             CGCGCGCGGTGCTGCTGTGCGCGGTTGGGCCACCCGCCTGGTCGCGGTGGCGCGGCTGCGGGCCGCCAGGGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCTGCTCGCTGATCAGGCCGATGACTTCGGC                                                                 <  NB501016:282:H2V7GAFX2:3:11611:9072:8164/151‑1 (MQ=60)
                                                                                        CTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGCTGACTTCGGGAAGCAGTTGGG                                                      >  NB501016:282:H2V7GAFX2:3:21607:24087:6682/1‑151 (MQ=60)
                                                                                        CTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGCGCCGCCAGGGTGTGGCAGGCCCACGCCTATAAGGCGCAGCTCGCAGATCACGCCGATGAATACGGCAAGCAGTTGGC                                                      >  NB501016:282:H2V7GAFX2:3:21606:8980:18840/1‑151 (MQ=60)
                                                                                          GCAGTGCGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCG                                                     <  NB501016:282:H2V7GAFX2:4:21407:17199:12830/150‑1 (MQ=60)
                                                                                              ggtgcggttgggcccccggggggggcggcggggcggTGCTGCTGCCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAA                                                <  NB501016:282:H2V7GAFX2:4:11507:20836:3853/115‑1 (MQ=60)
                                                                                               gcgggctggggccaccggcctgggcgggggggcgctggggcgGGCCGCCAGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAG                                               <  NB501016:282:H2V7GAFX2:2:11202:6176:12714/109‑1 (MQ=60)
                                                                                               gacgGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGGTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAG                                               <  NB501016:282:H2V7GAFX2:4:21411:16390:8100/147‑1 (MQ=60)
                                                                                               GAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCGGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGA                                                 >  NB501016:282:H2V7GAFX2:2:11312:24068:2332/1‑149 (MQ=60)
                                                                                                gggGCTTGGGCCCCCCGCCGGGGCGGCGGGGCGCTGCTGCGGGCCGCCAGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGG                                              <  NB501016:282:H2V7GAFX2:1:11111:6958:3082/148‑1 (MQ=60)
                                                                                                AGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCCGCGCGGGCGGCGCCCGGGCGGCCGGGGTGTGGggggccacccccgagaaggcgccccgcgcgggtcaggccgcgggcttcggcacgcagttggcggagaagg                                              >  NB501016:282:H2V7GAFX2:1:11308:10652:17668/1‑81 (MQ=60)
                                                                                                  CGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGAT                                            >  NB501016:282:H2V7GAFX2:1:21208:5955:19152/1‑151 (MQ=60)
                                                                                                    CTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCCGCGCGGGCGGCGCCCGGGCCGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCGAGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGGGAAGGGTCG                                          >  NB501016:282:H2V7GAFX2:1:11205:23295:15026/1‑151 (MQ=60)
                                                                                                        GGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGGCGCCAGCGCGGGCGGCGCCCGGGCCGCCGGGGTGTGGCAGGCCCACGCCGATAAAGCGCAGCGCGCGGATCAGGCCGCTGCCTTCGGCAAGCACTTGGGGGAGAAGGATCGCGCG                                      >  NB501016:282:H2V7GAFX2:3:21405:9574:18185/1‑151 (MQ=60)
                                                                                                          CCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCCGCGCTGGCGGCGCCCGGGCAGCCGGGGTGTGGCAGGCCCACGCCGATAAGGCGCAGCTCGCTGCTCAGGCCGCTGACGTCGGCAAGCAGTTGGCGGCGAAGGATCGCGCGCC                                    >  NB501016:282:H2V7GAFX2:2:11306:2160:13953/1‑151 (MQ=60)
                                                                                                                  gggggCGCCGTGGCGCTGCTGCTGGCCGCCTGCGCGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGCGCACGGTCTGG                            <  NB501016:282:H2V7GAFX2:1:11107:13941:17180/146‑1 (MQ=60)
                                                                                                                   TGGTCGCCGTGGCGCTGCTGCTGGGCGCCCGCGCTGGCGGgggccgggccgccggggggggggggggcaacgcctattatgcgcagctggctgatggggccgctgacttagggaaggagttggtggggaagggtagcgggcgcggggtggg                           >  NB501016:282:H2V7GAFX2:2:21209:26210:19275/1‑40 (MQ=39)
                                                                                                                    GGTCGCCGTGGGGCTGATGCTGGCCGCGAGGGGGGCGGGCGCCCGGGCAGCCTGGGTGTGGCAGGGCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGCGCACGGTCTGGAG                          <  NB501016:282:H2V7GAFX2:1:11102:14358:19617/151‑1 (MQ=60)
                                                                                                                       CGCCGTGGCGCTGCTGCTGGCCGCCCGCGCTGGCGGCGCCCGGGCCGCCGGGGTGTGGCAGGCCAACCCCGATAAGGCGCAGCTCGCGGCTCAGGCCGATGGCTTCGGCCAGCAGTTGGCGGAGAAGGGTGGCGCGCCCGGTCTGGAGCGG                       >  NB501016:282:H2V7GAFX2:3:11607:9874:5994/1‑151 (MQ=60)
                                                                                                                       CGCCGTGGCGCTGCTGCTGGCCGCCCGCGCGGGGGGCGCCCGGGCCGCCGGGGTGTGGCGGGCCAACGCCGATAAGGCGCCGCTCGCTGATAAGGCCGATGACTTCGGCAAGCAGTTGGCGGGGAAGGATCGCGCGCCCGGGCTGGAGCGG                       >  NB501016:282:H2V7GAFX2:2:11311:7954:17353/1‑151 (MQ=60)
                                                                                                                        GCCGGGGCGGTGCTGCGGGCCGCCCGCGGGGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGCGCACGGTCTGGAGCGGG                      <  NB501016:282:H2V7GAFX2:2:21303:16769:14473/151‑1 (MQ=60)
                                                                                                                        GCCGGGGCGCTGCTGGTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGCGCACGGTCTGGAGCGGG                      <  NB501016:282:H2V7GAFX2:3:11612:19236:18819/151‑1 (MQ=60)
                                                                                                                               CGCTGCTGCTGGCCGCCCGCGCGGGCGGCGCCCGGGCCGCCGGGGTGTGGCAGGCCAACGCCGATAAGGCGCCGCGCGCGGATAAGGCCGATGACTTCGGCAAGCAGTTGGGGGTGAAGGATCGCGCGCCCGGTCTGGAGCGGGAGAAGGC               >  NB501016:282:H2V7GAFX2:1:21102:8542:10189/1‑151 (MQ=60)
                                                                                                                                 ggGCTGCGGGCCGCCCGCGCGGCCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGCGCACGGTCTGGAGCGGGAGAAGGCTG             <  NB501016:282:H2V7GAFX2:2:11212:14831:7649/149‑1 (MQ=60)
                                                                                                                                          GCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGCGCACGGTCTGGAGCGGGAGAAGGCTGCAGCAGC      >  NB501016:282:H2V7GAFX2:2:11310:4748:8346/1‑149 (MQ=60)
                                                                                                                                            CGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGAGCCCGGTCTGGAGCGGGAGAAGGCTGCAGCAGCAGCG  >  NB501016:282:H2V7GAFX2:1:11212:18128:6246/1‑151 (MQ=60)
                                                                                                                                                |                                                                                                                                                  
CGACATCCTGGCGATCACCAAACGTATCAATGGTGGTAGCAACGGTCTGGAGGATCGCAAGGCCCTCTACAAGCGAGCGCTCGAGGTGCTGCAGTGAGCGCTTGGGCCACCCGCCTGGTCGCCGTGGCGCTGCTGCTGGCCGCCAGCGCTGGCGGCGCCCGGGCAGCCTGGGTGTGGCAGGCCAACGCCTATAAGGCGCAGCTCGCTGATCAGGCCGATGACTTCGGCAAGCAGTTGGCGGAGAAGGATCGCGCGCACGGTCTGGAGCGGGAGAAGGCTGCAGCAGCAGCG  >  NC_002947_CJ‑RC/3447142‑3447432

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑