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
A0 F0 I1 R1 59 79.3 3391134 98.6% 3343658 146.3

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GGATCACACGGGTGCGGCTGTCGAGCGCGGGGATCAGTGGGCATAGGCAATGGTCGAGCGGGCGCTGGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCTTTGCGGG‑CCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGGTCCTGGCTGATTTCCGCGCCTTGCCTGGCTTGCCCGGCACTCTGGTCGCACAGCTGGGCAATTCTCACGATCTGCTGGTTG  >  NC_002947_CJ‑RC/5136549‑5136842
                                                                                                                                                |                                                                                                                                                      
GGATCACACGGGTGCGGCTGTCGAGCGCGGGGATCAGTGGGCATAGGCAATGGTCGAGCGGGCGCTGGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCGTTGCGGG‑CCC                                                                                                                                                 >  NB501016:282:H2V7GAFX2:4:11607:8889:9140/1‑151 (MQ=60)
      CACGGGTGCGGCTGTCGAGCGCGGGGATCAGTGGGCATAGGCAATGGTCGAGCGGGCGCTGGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCTTTGCGGG‑CCCCGCGAT                                                                                                                                           >  NB501016:282:H2V7GAFX2:4:21611:23871:16586/1‑151 (MQ=60)
        CGGGTGCGGCTGTCGAGCGCGGGGATCAGTGGGCATAGGCAATGGTCGAGCGGGCGCTGGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCTTTGCGGG‑CCCCGCGATTT                                                                                                                                         >  NB501016:282:H2V7GAFX2:4:11407:1090:16558/1‑151 (MQ=60)
        CGGGTGCGGCTGTCGAGCGCGGGGATCAGTGGGCATAGGCAATGGTCGAGCGGGCGCTGGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCTTTGCGGG‑CCCCGCGATTT                                                                                                                                         >  NB501016:282:H2V7GAFX2:4:11406:26684:16557/1‑151 (MQ=60)
                                  gctggggccttcgtaatggggcggggggggggtgccggcggggggggggggggggggcggggggggcccggtgggggggcccttttgccaaaaAACCGGGGCCCGGTTTGGGGGCCCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGC                                                                                                                <  NB501016:282:H2V7GAFX2:4:11403:1528:13561/58‑1 (MQ=53)
                                        gccatgtccatggggcgcgggggcggggcccgcgcgcgcgggggggtggggcctggggggcccctgggggggtcatttttcccaaaaacCCGGGGCCCGGTTTGGGGGCCCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCA                                                                                                          <  NB501016:282:H2V7GAFX2:1:21107:24719:11700/62‑1 (MQ=60)
                                               CAATGGTCGAGCGGGCGCTGGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCTTTTGGGG‑CCCCGCGGTTTTAGCGGTTttaccattaagccaggcgatggacgttctac                                                                                                  >  NB501016:282:H2V7GAFX2:4:21602:19055:12823/1‑120 (MQ=60)
                                               CAATGGTCGAGCGGGCGCTGGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCTTTGCGGG‑CCCCGCGATTTCCGCGGGTGAACCTTTCCGCCAGGCTATGGAGGTACTCC                                                                                                  >  NB501016:282:H2V7GAFX2:2:11303:3496:8895/1‑151 (MQ=60)
                                                     ggcgcgggggggtgggcggggggggcgggggggggggggctgggggggggcgtgggggtgcactgtttcccaaaAACCGGGGCCCGGTTTGGGGGCCCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCAGGTACTCCGCCAT                                                                                             <  NB501016:282:H2V7GAFX2:3:11611:21192:1877/77‑1 (MQ=60)
                                                                ggggcccgcccccgcggggggggggggcctggggggccccgtggggggccacttttcccaaaaAACCGGGGCCCGGTTTGGGGGCCCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGGT                                                                                  <  NB501016:282:H2V7GAFX2:4:11403:5794:2947/88‑1 (MQ=60)
                                                                  GGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTCGCCACATAACCGGGGCCCGCTTTTGGGG‑CCCCGCGATTTGAGCGGTTGAACCTTTACGCCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGagat                                                                                >  NB501016:282:H2V7GAFX2:4:21601:23056:18692/1‑146 (MQ=60)
                                                                                             TGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCTTTGCGGG‑CCCCGCGATTTCAGCGGTTGCACCTTTCCGCCAGGCTATGCAGGTACTCCGCCAAGCGCTCGAGGTCCTGGCTGATTTACGCGCCTTGCCTGGCTT                                                    >  NB501016:282:H2V7GAFX2:2:11307:26497:8268/1‑151 (MQ=60)
                                                                                                                    GTTTGCCACATAACCGGGGCCCGCATTGCGGG‑CCCCGCGATTTAAGCGGTTGAACCTTTACGCCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGGTCCTGGCTGATTTACGCGCCTTGCCTGGCTTGCCCGGCACACTGGTCGCACAGC                             >  NB501016:282:H2V7GAFX2:3:11404:6369:10770/1‑151 (MQ=60)
                                                                                                                         ccaaaaacCCGGGCCCCGCTTGGGGGG‑CCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGGTCCTGGCTGATTTCCGCGCCTTGCCTGGCTTGCCCGGCACTCTGGTCGCACAGCTGGGC                        <  NB501016:282:H2V7GAFX2:1:21208:19607:13267/143‑1 (MQ=60)
                                                                                                                                 CCGGGGCCCGCTTTTCGGG‑CCCCGCGATTTAAGCGGTTGAACCATTACCCCACGCTATGCAGGTACTCCGCCAAGCGCTCGAGGTCCTGGCTGATTTACGCGCCATGCCTGGCTTGCCCGGCACACTGGTCGCACAGCTGGGCAATTCTC                 >  NB501016:282:H2V7GAFX2:4:11504:19942:15838/1‑150 (MQ=60)
                                                                                                                                    GGGCCCGTTTTGGGGGCCCCCGCGATTTCAGCGGTTGAACCTTTCCACCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGGTCCTGGCTGATTTCCGCGCCTTGCCTGGCTTGCCCGGCACTCTGGTCGCACAGCTGGGCAATTCTCACG              <  NB501016:282:H2V7GAFX2:3:21409:13180:11456/151‑1 (MQ=60)
                                                                                                                                       CCCGTTTTGGGGG‑CCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGGTCCTGGCTGATTTCCGCGCCTTGCCTGGCTTGCCCGGCACTCTGGTCGCACAGCTGGGCAATTCTCACGATCT          <  NB501016:282:H2V7GAFX2:3:21603:21339:3787/151‑1 (MQ=60)
                                                                                                                                               GGGGG‑CCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCAGGTACTCCGCCATGCGCTGGAGGTCCTGGCTGATTTCCGCGCCTTGCCTGGCTTGCCCGGCACTCTGGTCGCACAGCTGGGCAATTCTCACGATCTGCTGGTTG  <  NB501016:282:H2V7GAFX2:4:21410:10100:19604/151‑1 (MQ=60)
                                                                                                                                                CGGG‑CCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGGTCCTGGCTGATTTCCGCGCCTTGCCTGGCTTGCCCGGCACTCTGGTCGCACAGCTGGGCAATTCTCAC               <  NB501016:282:H2V7GAFX2:2:11102:17458:1118/137‑1 (MQ=60)
                                                                                                                                                |                                                                                                                                                      
GGATCACACGGGTGCGGCTGTCGAGCGCGGGGATCAGTGGGCATAGGCAATGGTCGAGCGGGCGCTGGCAGCGCTCGCAGCGGGGTCTGGGCATGGCGGTCTCCTTGGCGGGGACAGTTTGCCACATAACCGGGGCCCGCTTTGCGGG‑CCCCGCGATTTCAGCGGTTGAACCTTTCCGCCAGGCTATGCAGGTACTCCGCCATGCGCTCGAGGTCCTGGCTGATTTCCGCGCCTTGCCTGGCTTGCCCGGCACTCTGGTCGCACAGCTGGGCAATTCTCACGATCTGCTGGTTG  >  NC_002947_CJ‑RC/5136549‑5136842

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑