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 F75 I0 R1 89 94.9 3159934 98.0% 3096735 144.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCTTGTTCT  >  NC_000913/4296231‑4296530
                                                                                                                                                        |                                                                                                                                                     
cccgtcgcctcactttgtctttattttttctaggttaagccggattccgaaatatctcattgtgcgtggagttcagacgttttctcttcctatggCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑C                                                                                                                                                       <  NB501016:230:HFVJLAFXY:1:21204:4602:13351/56‑1 (MQ=0)
                                                                CGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGT                                                                                         >  NB501016:230:HFVJLAFXY:4:11410:7473:15440/1‑151 (MQ=7)
                                                                 GACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTT                                                                                        >  NB501016:230:HFVJLAFXY:4:21602:26356:4451/1‑151 (MQ=9)
                                                                   CGCTTCCCGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGGCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGG                                                                                      <  NB501016:230:HFVJLAFXY:2:11208:24702:1983/151‑1 (MQ=15)
                                                                   CGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGG                                                                                      <  NB501016:230:HFVJLAFXY:4:11408:2945:9521/151‑1 (MQ=16)
                                                                    ggaTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGG                                                                                      <  NB501016:230:HFVJLAFXY:1:21112:23272:15646/147‑1 (MQ=16)
                                                                        AACGCGTCTTATCAGGCCTACGCCATACAGCGCAATAGCCTGATTTAGAGTTATTTTGTAGGTCGGCTAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAAT                                                                                 <  NB501016:230:HFVJLAFXY:4:21504:4552:19049/151‑1 (MQ=24)
                                                                         ACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATT                                                                                >  NB501016:230:HFVJLAFXY:4:21407:3211:1201/1‑151 (MQ=29)
                                                                            CGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTT                                                                             >  NB501016:230:HFVJLAFXY:2:21206:6426:19069/1‑151 (MQ=35)
                                                                            CGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTT                                                                             >  NB501016:230:HFVJLAFXY:4:11608:3815:8250/1‑151 (MQ=35)
                                                                               cagataAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAA                                                                          <  NB501016:230:HFVJLAFXY:4:21509:25146:14130/145‑1 (MQ=41)
                                                                                 TATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAA                                                                          <  NB501016:230:HFVJLAFXY:1:11110:6077:3077/149‑1 (MQ=41)
                                                                                  ATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACT                                                                       >  NB501016:230:HFVJLAFXY:2:11107:15195:18538/1‑151 (MQ=47)
                                                                                     AGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTT                                                                    >  NB501016:230:HFVJLAFXY:3:11503:25205:7070/1‑151 (MQ=53)
                                                                                      GGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTC                                                                   >  NB501016:230:HFVJLAFXY:3:11401:16661:1749/1‑151 (MQ=55)
                                                                                                ccacatCGCAATAGCCTGATTTAGCGTGATTTTGTAGTTCGGATAAGTCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTA                                                         <  NB501016:230:HFVJLAFXY:3:11402:26273:1042/145‑1 (MQ=60)
                                                                                                  ACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACACGGTAT                                                        >  NB501016:230:HFVJLAFXY:3:21410:20156:5505/1‑150 (MQ=60)
                                                                                                   CAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATC                                                       >  NB501016:230:HFVJLAFXY:2:21204:12185:19368/1‑150 (MQ=60)
                                                                                                     GCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTagatcggaaagagcac                                                     >  NB501016:230:HFVJLAFXY:1:11112:4547:9419/1‑134 (MQ=53)
                                                                                                     GCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAA                                                     >  NB501016:230:HFVJLAFXY:2:11108:19876:20183/1‑150 (MQ=60)
                                                                                                      CGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAC                                                   >  NB501016:230:HFVJLAFXY:3:21606:18545:16092/1‑151 (MQ=60)
                                                                                                      CGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAAC                                                   <  NB501016:230:HFVJLAFXY:2:21212:22580:18557/151‑1 (MQ=60)
                                                                                                       GCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACC                                                  <  NB501016:230:HFVJLAFXY:3:11511:20049:17803/151‑1 (MQ=60)
                                                                                                        CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCC                                                 >  NB501016:230:HFVJLAFXY:2:21102:5903:17380/1‑151 (MQ=60)
                                                                                                            AGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCC                                             >  NB501016:230:HFVJLAFXY:1:11304:6095:6806/1‑151 (MQ=60)
                                                                                                             GCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCA                                            <  NB501016:230:HFVJLAFXY:4:21511:8547:4574/151‑1 (MQ=60)
                                                                                                                          TGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTT                               >  NB501016:230:HFVJLAFXY:4:11609:16864:1077/1‑151 (MQ=60)
                                                                                                                           GATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTT                               <  NB501016:230:HFVJLAFXY:1:11312:22826:10461/150‑1 (MQ=60)
                                                                                                                                 GTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAAC                           >  NB501016:230:HFVJLAFXY:2:11311:16914:13366/1‑148 (MQ=60)
                                                                                                                                    GGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGC                     >  NB501016:230:HFVJLAFXY:1:11106:15018:11615/1‑151 (MQ=60)
                                                                                                                                                CGTTTACGCCGAATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTACCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGC         >  NB501016:230:HFVJLAFXY:1:21102:25761:2535/1‑151 (MQ=60)
                                                                                                                                                 GTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATAacggcggcgatggctacgtggtcgcgcgactggc        >  NB501016:230:HFVJLAFXY:2:11106:8294:11946/1‑117 (MQ=60)
                                                                                                                                                 GTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCT        <  NB501016:230:HFVJLAFXY:1:21201:24564:16606/151‑1 (MQ=60)
                                                                                                                                                 GTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCT              >  NB501016:230:HFVJLAFXY:2:11305:12978:11722/1‑145 (MQ=60)
                                                                                                                                                     acgCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCTTGT     <  NB501016:230:HFVJLAFXY:4:11503:16924:15370/147‑1 (MQ=60)
                                                                                                                                                     G‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCTTGTTCT  <  NB501016:230:HFVJLAFXY:1:21301:18332:16345/151‑1 (MQ=60)
                                                                                                                                                     G‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCTTGTTCT  <  NB501016:230:HFVJLAFXY:1:11308:12254:8504/151‑1 (MQ=60)
                                                                                                                                                      cgCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCTTGTTC   <  NB501016:230:HFVJLAFXY:3:21604:1588:8071/149‑1 (MQ=60)
                                                                                                                                                        |                                                                                                                                                     
GATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCTTGTTCT  >  NC_000913/4296231‑4296530

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