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 F48 I1 R1 58 71.3 3054194 98.3% 3002272 146.3

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGTT  >  NC_002947_CJ‑RC/2863687‑2863974
                                                                                                                                              |                                                                                                                                                 
CGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGGGCGCCGGCC                                                                                                                                           >  NB501016:282:H2V7GAFX2:2:21205:3477:19124/1‑151 (MQ=60)
                                   ACAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGGTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCGGGCTCGCGGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGG                                                                                                        <  NB501016:282:H2V7GAFX2:3:11508:17643:13592/151‑1 (MQ=60)
                                        CAGGAAATGGGGGTGCGGGCCCGTCGGGGGCACCCGGTGTTGCACACACACCTGACGCTCACGGGCGTGCACCAGGCGCGCGGGGTGTTGCCGCGGGCGGGCGCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGA                                                                                                   <  NB501016:282:H2V7GAFX2:1:21107:21325:3325/151‑1 (MQ=60)
                                                   GGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCCGCCCGggcgcggggcgccacccgcgtcgccgccgccggccggcgcgcgcccggg                                                                                        >  NB501016:282:H2V7GAFX2:4:11501:21255:17511/1‑102 (MQ=60)
                                                                      CACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTG                                                                     <  NB501016:282:H2V7GAFX2:3:21501:19306:3854/151‑1 (MQ=60)
                                                                        CCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCGGCCCGgccgcggcgcgccaacggcgtcgccgccccgggccggcccgcgcccgggccgggggggggaagcgggggt                                                                   >  NB501016:282:H2V7GAFX2:1:11201:8119:6633/1‑81 (MQ=60)
                                                                        CCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCCGCCCGGCAGCGGCGCGCCAACTGCTTCGCCGCCGCGGGCCTGACCGCGCCCGGGCCGGGGGTGGAAAGCGCGGAT                                                                   >  NB501016:282:H2V7GAFX2:4:21512:4228:17671/1‑151 (MQ=60)
                                                                              GTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGC                                                              <  NB501016:282:H2V7GAFX2:3:21507:8893:15461/150‑1 (MQ=60)
                                                                              GTTGCACACTCACCTCACGCTCACGGGCGTGCACCCGGCGCGGGGGGTGTGGCCGCGGGCGGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGC                                                                       <  NB501016:282:H2V7GAFX2:2:21207:16535:19632/141‑1 (MQ=60)
                                                                                TGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGGTCGCCGGCCCGTCCGCTGCGGGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGGGGCCGGTGGGGGAAAGCGCTGATCTGGCGGG                                                           >  NB501016:282:H2V7GAFX2:4:11411:3537:10913/1‑151 (MQ=60)
                                                                                TGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGG                                                            <  NB501016:282:H2V7GAFX2:4:21407:6480:12748/150‑1 (MQ=60)
                                                                                    CACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGGCGGCGCGCCCGCCCGgccgcggcgcgacaacagcatcgcccccccgggccagaccccgcccgggcccggggggggaagcgcggagctggcgggttt                                                        >  NB501016:282:H2V7GAFX2:4:21601:8747:19302/1‑69 (MQ=60)
                                                                                    CACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGGCCGCAGCTCGACAACTGCTTCGCCCCCCCGGGCCAGACAGCGCCGGGGCCGGgggggggaaggcgggagggggggggtatg                                                       >  NB501016:282:H2V7GAFX2:3:21403:3368:3651/1‑122 (MQ=60)
                                                                                        CACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCGCGCCCGCCCGgccgcggcggggcaacagcgtcgccgccgcgggccggcccgccccgtggccgggggggggaagggctggtcgggcgg                                                            >  NB501016:282:H2V7GAFX2:4:21511:3432:2136/1‑65 (MQ=60)
                                                                                         ACCTGACGCTCACGGGGGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGGGGTTATCCGTGG                                                  <  NB501016:282:H2V7GAFX2:2:11301:15138:2302/151‑1 (MQ=60)
                                                                                                     GGGGCGGGCACCTGGCGCGGTGGGGGTGGCCGGGGGCCGGCGCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCTGTTATCCGTGGCCTACTGGTGCG                                      <  NB501016:282:H2V7GAFX2:1:21205:5122:2826/151‑1 (MQ=60)
                                                                                                            GCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGAC                               <  NB501016:282:H2V7GAFX2:1:21106:8627:8090/151‑1 (MQ=60)
                                                                                                                                     CGGGCCGGCGAGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACC      >  NB501016:282:H2V7GAFX2:3:11604:24094:8170/1‑151 (MQ=60)
                                                                                                                                         CCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGTT  >  NB501016:282:H2V7GAFX2:3:21612:10887:20193/1‑151 (MQ=60)
                                                                                                                                              TCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTC                                   >  NB501016:282:H2V7GAFX2:4:11504:12510:10455/1‑113 (MQ=60)
                                                                                                                                              |                                                                                                                                                 
CGACTATGCCAGCGACCTGGTGGGCGAGCCGCTCATCAACGAGGAAATGGTGGTGCTGGCCCGTCGGGGGCACCCGCTGTTGCACACTCACCTGACGCTCAAGGGCGTGCACCAGGCGCGCTGGGTGTTGCCGCGGGCCGGCTCGCCGGCCCGTCAGCTGCTCGACAACTGCTTCGCCGCCGCGGGCCTGACAGCGCCGTGGCCGGTGGTGGAAAGCGCTGATCTGGCGGTTATCCGTGGCCTACTGGTGCGTTCGGACATGCTGGCGGCGGTGTCTGCGCACCAGTT  >  NC_002947_CJ‑RC/2863687‑2863974

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: ‑