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 F42 I1 R1 60 69.9 3000528 98.3% 2949519 146.4

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CGGACGTGTCGCTGATCGACCCGCAGACCACCCTGAGCATGGACCCGTTCCTGTCGGCCTGCACCGGCATCGATGCGTTGGTGCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGACCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCGAGAAGATCATGCTCGGCAGCATGCAGGCGGGGCTGGCGTTCTCCAATGCGATCCTGGGCGCAGT  >  NC_002947_CJ‑RC/3071668‑3071944
                                                                                                                                 |                                                                                                                                                   
CGGACGTGTCGCTGATCGACCCGCAGACCACCCTGAGCATGGACCCGTTCCTGTCGGCCTGCACCGGCATCGATGCGTTGGTGCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCAT                                                                                                                                >  NB501016:282:H2V7GAFX2:4:11504:11915:10156/1‑151 (MQ=60)
                      GCAGACCACCCTGAGCATGGACCCGTTCCTGTCGGCCTGCACCGGCATCGATGCGTTGGTGCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTG                                                                                                          <  NB501016:282:H2V7GAFX2:1:11208:8807:11886/151‑1 (MQ=60)
                                                      CGGCCTGCACCGGCATCGATGCGTTGGTGCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGC                                                                          >  NB501016:282:H2V7GAFX2:3:21603:18430:1733/1‑151 (MQ=60)
                                                                 GGCATCGATGCGTTGGTGCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCG                                                                  >  NB501016:282:H2V7GAFX2:1:11308:3881:7473/1‑148 (MQ=60)
                                                                   CATCGATGCGTTGGTGCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCGAGA                                                               >  NB501016:282:H2V7GAFX2:3:21510:5278:18310/1‑149 (MQ=60)
                                                                       GATGCGTTGGTGCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCATGATCAATGGCAACCTGGTGGAGATGATAGCCAACCCTACTGATATTGCGCTGCGCGAGAAGATC                                                          >  NB501016:282:H2V7GAFX2:3:21608:5878:15752/1‑150 (MQ=60)
                                                                                  GCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCGAGAAGATCATGCTCGGCAGC                                              >  NB501016:282:H2V7GAFX2:1:11112:17985:18837/1‑151 (MQ=60)
                                                                                             AGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCGAGAAGATCATGCTCGGCAGCATGCAGGCGGG                                   <  NB501016:282:H2V7GAFX2:1:11104:8880:9995/151‑1 (MQ=60)
                                                                                                           ACCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTTGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCGAGAAGATCATGCTCGGCAGCATGCAGGCGGGGCTGGCGTTCT                        <  NB501016:282:H2V7GAFX2:1:11211:14295:20239/148‑1 (MQ=60)
                                                                                                            CCGGCCACGGGCCGCTGACCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCGAGAAGATCATGCTCGGCAGCATGCAGGCGGGGCTGGCGTTCTCCA                     >  NB501016:282:H2V7GAFX2:1:21110:21899:9767/1‑150 (MQ=60)
                                                                                                                              CCGCCCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCGAGAAGATCATGCGCGGCAGCATGCAGGCGGGGCTGGCGTTCTCCAATGCGATCCTGGGCGCAGT  <  NB501016:282:H2V7GAFX2:4:11608:15132:20249/151‑1 (MQ=60)
                                                                                                                                 |                                                                                                                                                   
CGGACGTGTCGCTGATCGACCCGCAGACCACCCTGAGCATGGACCCGTTCCTGTCGGCCTGCACCGGCATCGATGCGTTGGTGCATGCCATCGAGGCCTTCGTGTCTACCGGCCACGGGCCGCTGACCGACCCCCATGCGCTGGAAGCCATGCGCCTGATCAATGGCAACCTGGTGGAGATGATCGCCAACCCTACTGATATTGCGCTGCGCGAGAAGATCATGCTCGGCAGCATGCAGGCGGGGCTGGCGTTCTCCAATGCGATCCTGGGCGCAGT  >  NC_002947_CJ‑RC/3071668‑3071944

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑