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
TGAGCGCCCAGCGCTGCTGACCCGCAAGGGCTGATAGAAGTACCGAGGGGGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGC‑GCGCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATGCCGAAGTCGTTCAGGTTCAGCGTGGTGGTGGCGTTGAAGCCAGCGCGCTCG  >  NC_002947_CJ‑RC/5677420‑5677716
                                                                                                                                                   |                                                                                                                                                      
ggcGCGCCCCGCGCTGCTGACCCGCAAGGGCTGATACACGACCCGCGGGGGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGC‑G‑GCCC                                                                                                                                                   <  NB501016:282:H2V7GAFX2:2:11101:14103:11493/148‑1 (MQ=60)
     GCCCAGCGCTGCTGACCCGCAAGGGCTGATAGAAGTACCGAGGGGGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCG                                                                                                                                                >  NB501016:282:H2V7GAFX2:3:11603:21183:4459/1‑151 (MQ=60)
                      CGCAAGGGCTGATAGAAGTACCGAGGGGGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCGCGGTTTTCAGCAGGCAGA                                                                                                                                >  NB501016:282:H2V7GAFX2:2:21204:21558:14182/1‑150 (MQ=60)
                                         ACCGAGGGGGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACC                                                                                                            <  NB501016:282:H2V7GAFX2:2:11208:4508:15321/151‑1 (MQ=60)
                                            GAGGGGGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTC                                                                                                         >  NB501016:282:H2V7GAFX2:3:21409:11098:2932/1‑151 (MQ=60)
                                             AGGGGGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCG                                                                                                        >  NB501016:282:H2V7GAFX2:2:11310:16786:15787/1‑151 (MQ=60)
                                                 GGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACAC                                                                                                    >  NB501016:282:H2V7GAFX2:1:11103:9112:16924/1‑151 (MQ=60)
                                                          CCAGCCCTATCACGACACAAGGCCGCTCCTCCAGAGAATTTCTTTAACTCTACAGGAGCGGCCTTGTGTCGTTATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCA                                                                                           <  NB501016:282:H2V7GAFX2:3:11411:22438:6862/151‑1 (MQ=60)
                                                               CCTATCACGACACAAGGCCGCTCCTGCAGATAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCC                                                                                      <  NB501016:282:H2V7GAFX2:1:11303:9662:19288/151‑1 (MQ=60)
                                                                CTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCGCGGGTTTCAGCTGGCAGAAATTACTTGTGCTTCACACCTTCGACACTGATATCCAGGTCC                                                                                      >  NB501016:282:H2V7GAFX2:3:11507:26686:11618/1‑150 (MQ=60)
                                                                    CACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTGTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGCCACTGATATCCAGGTCCAGGGG                                                                                 >  NB501016:282:H2V7GAFX2:4:21404:25589:11551/1‑151 (MQ=60)
                                                                    CACGACACAAGGCCGCTCATGCAGATAATTTCTTGATCTCTACTGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGG                                                                                  <  NB501016:282:H2V7GAFX2:3:21507:14279:19482/150‑1 (MQ=60)
                                                                           CAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGA                                                                           >  NB501016:282:H2V7GAFX2:3:11404:1387:12547/1‑150 (MQ=60)
                                                                           CAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGA                                                                           >  NB501016:282:H2V7GAFX2:4:21509:11382:4510/1‑150 (MQ=60)
                                                                           CAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGA                                                                           >  NB501016:282:H2V7GAFX2:3:11403:26807:12548/1‑150 (MQ=60)
                                                                               GCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAG                                                                      <  NB501016:282:H2V7GAFX2:4:11610:20061:2991/151‑1 (MQ=60)
                                                                                 CGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGC                                                                     >  NB501016:282:H2V7GAFX2:3:21607:8272:10146/1‑150 (MQ=60)
                                                                                   ctcctgtagagatcaagaaatTCTCTGCAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGGTTTCAGCTGGCAGAAATTACTTATTCTTAACACCATAGAAACAGATATACAGGTCCAGGGTCTGCGAAGTAGCACC                                                                  >  NB501016:282:H2V7GAFX2:1:11312:15339:1103/22‑151 (MQ=12)
                                                                                                TTTCTTTATCTCTACAGGAGAGGCATTGTGTCGTGATATGGCCGCAAAGCGGCCCCCTGGGTTTTCAGCTGGGAGAAATTACTTCTTCTTCACACCTTCGACACTGATATCCAGGTCCAGTGTCTGCGAAGTAGCTCCCGGGCCTTTGAT                                                      <  NB501016:282:H2V7GAFX2:4:11610:1860:18044/150‑1 (MQ=60)
                                                                                                 TTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATG                                                     <  NB501016:282:H2V7GAFX2:1:11101:24550:19403/150‑1 (MQ=60)
                                                                                                 TTCTTCATCTCTACTGGTGCGGCGTTTTGTCGTTATAGGGCCGCAACGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATG                                                     <  NB501016:282:H2V7GAFX2:3:11501:23930:16615/150‑1 (MQ=60)
                                                                                                           CTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGGTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCATCGACACTGATATCCACGTCCAGGGTCTGCGAAGTAGCCCCCGGGCCGTTGATGCCGAAGACGTT                                          >  NB501016:282:H2V7GAFX2:4:21504:6855:2734/1‑151 (MQ=60)
                                                                                                                GGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTTCTTCTGCTTCCCACCTTCGACACTGATATACAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATGCCGAAGTCGTTCAGGT                                     >  NB501016:282:H2V7GAFX2:2:11207:24079:3361/1‑151 (MQ=60)
                                                                                                                      GCCTTGTGTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATGCCGAAGTCGTTCAGGTTCAGCG                               >  NB501016:282:H2V7GAFX2:1:11211:11547:18887/1‑151 (MQ=60)
                                                                                                                             GTCGTGATAGGGCCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATGCCGAAGTCGTTCAGGTTCAGCGTGGTGG                         <  NB501016:282:H2V7GAFX2:1:11106:22824:4612/150‑1 (MQ=60)
                                                                                                                                         CCGCAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTA                                                                       >  NB501016:282:H2V7GAFX2:1:21306:8387:18526/1‑92 (MQ=60)
                                                                                                                                            CAAAGCGGCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATGCCGAAGTCGTTCAGGTTCAGCGTGGTGGTGGCGTTGAAGCCAGC         <  NB501016:282:H2V7GAFX2:1:11102:24506:8594/151‑1 (MQ=60)
                                                                                                                                                   GCCCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATGCCGAAGTCGTTCAGGTTCAGCGTGGTGGTGGCGTTGAAGCCAGCGCGCTCG  <  NB501016:282:H2V7GAFX2:4:21405:23628:18856/151‑1 (MQ=60)
                                                                                                                                                   |                                                                                                                                                      
TGAGCGCCCAGCGCTGCTGACCCGCAAGGGCTGATAGAAGTACCGAGGGGGCTGCTTCGCAGCCCTATCACGACACAAGGCCGCTCCTGCAGAGAATTTCTTGATCTCTACAGGAGCGGCCTTGTGTCGTGATAGGGCCGCAAAGC‑GCGCCCTCGGTTTTCAGCTGGCAGAAATTACTTCTGCTTCACACCTTCGACACTGATATCCAGGTCCAGGGTCTGCGAAGTAGCACCCGGGCCTTTGATGCCGAAGTCGTTCAGGTTCAGCGTGGTGGTGGCGTTGAAGCCAGCGCGCTCG  >  NC_002947_CJ‑RC/5677420‑5677716

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: ‑