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 F14 I0 R1 206 76.7 3255580 98.8% 3216513 146.3

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTG  >  NC_002947_CJ‑RC/1419410‑1419625
                                                                                                                                            |                                                                            
GATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGG                                                                    <  NB501016:282:H2V7GAFX2:3:21412:15613:12198/151‑1 (MQ=60)
           CGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTTGCGGGCACGCCCGCT                                                          <  NB501016:282:H2V7GAFX2:4:11405:15877:8934/150‑1 (MQ=60)
            GATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCC                                                        <  NB501016:282:H2V7GAFX2:2:11112:21329:20230/151‑1 (MQ=60)
                 GGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑Ccgcgttaagggggggccccccccccccc                                                  >  NB501016:282:H2V7GAFX2:3:11408:23745:1683/1‑123 (MQ=60)
                 GGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTAGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGgcgcgcccccccccccc                                                   >  NB501016:282:H2V7GAFX2:2:11204:3629:9780/1‑134 (MQ=60)
                                    GTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGAC                                <  NB501016:282:H2V7GAFX2:3:11602:22099:9479/151‑1 (MQ=60)
                                                    AAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGACTGGGCTGGCCTCTTCGAGGGCACGCCCcctaccacatgttatttgaagttggttaccgcgttgtttaacc                  >  NB501016:282:H2V7GAFX2:2:21108:19185:2378/1‑106 (MQ=60)
                                                        AGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGG            <  NB501016:282:H2V7GAFX2:4:11604:24951:20293/151‑1 (MQ=60)
                                                        AGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGG            <  NB501016:282:H2V7GAFX2:3:21403:4495:12160/151‑1 (MQ=60)
                                                          GTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAG          <  NB501016:282:H2V7GAFX2:4:21411:18971:12752/151‑1 (MQ=60)
                                                              TGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCG        <  NB501016:282:H2V7GAFX2:4:11411:9139:20272/149‑1 (MQ=60)
                                                               GCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGG      <  NB501016:282:H2V7GAFX2:3:21407:11109:18310/150‑1 (MQ=60)
                                                                 CGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑Ccagataaagggggggcacccccaccaaaacagagaggggggggggaggggggggggggggcgaggggggggcgggg  >  NB501016:282:H2V7GAFX2:2:21201:21289:5133/1‑75 (MQ=60)
                                                                  GACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTG  <  NB501016:282:H2V7GAFX2:1:21301:23455:3587/151‑1 (MQ=60)
                                                                                  GTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGGCCTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCG    <  NB501016:282:H2V7GAFX2:3:21405:21930:16290/133‑1 (MQ=60)
                                                                                                 GGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑C                                                                              <  NB501016:282:H2V7GAFX2:2:21105:19123:1323/43‑1 (MQ=60)
                                                                                                                                            CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAG          <  NB501016:282:H2V7GAFX2:1:11304:3422:4479/69‑1 (MQ=60)
                                                                                                                                            |                                                                            
GATGCCGGGTTCGATGCGGAACAGCGGGTGAGTGTTGTTTTCGCCTTGGTAGAAGCAGGTCTTGCCGACTGTGGTGGGTTCTGTTGTGTTGTCGGTGGGCATTGTTTTGTTTCCCTGGATTCTGGGTTGCCTGGGCTGG‑CTCTTCGCGGGCACGCCCGCTCCCACAGGTACTGTGCAGTGCGTGACGGCTGTGGTGACCCTGTGGGAGCGGGCGTG  >  NC_002947_CJ‑RC/1419410‑1419625

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑