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
A1 F14 I0 R1 248 61.6 2601574 98.7% 2567753 146.9

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
AGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTCTGC‑GGTAAACCCGCTCCTACCAGGGA‑CGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACTTCTGCACCTTGCCG  >  NC_002947_CJ‑RC/4586029‑4586308
                                                                                                                                         |                                                                                                                                                
AGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTG                                                                                                                                      <  NB501016:282:H2V7GAFX2:2:11207:2228:10580/150‑1 (MQ=60)
     ACGGCACCGGCGTGAACAGCTGATCAGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCG                                                                                                                                <  NB501016:282:H2V7GAFX2:2:21312:23088:12719/151‑1 (MQ=60)
          ACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCT                                                                                                                           <  NB501016:282:H2V7GAFX2:1:11203:9915:13122/151‑1 (MQ=60)
             GGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCC                                                                                                                        <  NB501016:282:H2V7GAFX2:3:11604:3109:6136/151‑1 (MQ=60)
                   AACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGT                                                                                                                  <  NB501016:282:H2V7GAFX2:4:21408:19937:16290/151‑1 (MQ=60)
                     CAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGTCCGGGTGCTTGGCAAGGGGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAG                                                                                                                <  NB501016:282:H2V7GAFX2:3:11606:4159:4150/151‑1 (MQ=60)
                                    GCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACC                                                                                                   <  NB501016:282:H2V7GAFX2:4:11508:10353:6185/149‑1 (MQ=60)
                                    GCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACC                                                                                                   <  NB501016:282:H2V7GAFX2:4:21610:10870:6315/149‑1 (MQ=60)
                                                                                                                      ACCCGCTCCTACCAGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACTT               >  NB501016:282:H2V7GAFX2:1:11302:18587:2466/1‑151 (MQ=60)
                                                                                                                                   AGGGACCGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACTTCTGCACCTTGCCG  >  NB501016:282:H2V7GAFX2:3:11511:25858:7627/1‑151 (MQ=60)
                                                                                                                                         |                                                                                                                                                
AGACCACGGCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTCTGC‑GGTAAACCCGCTCCTACCAGGGA‑CGTGCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCCGCGCCAGCACATCAACCCGCAGATGCAGCCGCAATCTCCGCCACACTGATCTCACGCATGCGGAACTTCTGCACCTTGCCG  >  NC_002947_CJ‑RC/4586029‑4586308

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑