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
A2 F36 I0 R1 80 95.4 3476014 97.7% 3396065 133.8

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTATGCCGCATCCGACATCAACGCCTGATGCGACGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCTTGTTCT  >  NC_000913/4296231‑4296530
                                                                                                                                                        |                                                                                                                                                     
gatttagcgtgattttttttttcttttatttcttttattccgcaacctagatgatcgactgcagcgaagattaccgctctttatcactCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTA‑‑C                                                                                                                                                       <  NB501016:230:HFVJLAFXY:1:11201:8018:5462/63‑1 (MQ=0)
                                                                   GGCTTAACGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGACAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGG                                                                                      <  NB501016:230:HFVJLAFXY:2:21307:6087:11019/151‑1 (MQ=16)
                                                                          CGCGTCTTATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTT                                                                               >  NB501016:230:HFVJLAFXY:3:11612:23953:19005/1‑151 (MQ=31)
                                                                                  ATCAGGCCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACT                                                                       >  NB501016:230:HFVJLAFXY:1:21302:15148:18767/1‑151 (MQ=47)
                                                                                        CCTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCAC                                                                 >  NB501016:230:HFVJLAFXY:1:11310:17409:2663/1‑151 (MQ=59)
                                                                                         CTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCAC                                                                 >  NB501016:230:HFVJLAFXY:2:21105:13872:17310/1‑150 (MQ=59)
                                                                                         CTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCAC                                                                 >  NB501016:230:HFVJLAFXY:3:11607:20047:16460/1‑150 (MQ=59)
                                                                                         CTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCAC                                                                 >  NB501016:230:HFVJLAFXY:3:11510:13506:5384/1‑150 (MQ=59)
                                                                                         CTACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACAGTTGGTTAATTTTTCAAACTCTTCACC                                                                >  NB501016:230:HFVJLAFXY:4:21503:9376:3098/1‑151 (MQ=47)
                                                                                          TACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAAC                                                                        <  NB501016:230:HFVJLAFXY:2:21111:7370:7517/142‑1 (MQ=46)
                                                                                           ACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACC                                                              >  NB501016:230:HFVJLAFXY:3:21608:16938:3319/1‑151 (MQ=60)
                                                                                           ACGCCAGACAGCGCAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACAC                                                               <  NB501016:230:HFVJLAFXY:4:11406:19440:12131/150‑1 (MQ=60)
                                                                                                        CAATAGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCC                                                 >  NB501016:230:HFVJLAFXY:2:21301:7184:17581/1‑151 (MQ=60)
                                                                                                            AGCCTGATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTC                                              <  NB501016:230:HFVJLAFXY:2:11304:23441:9343/150‑1 (MQ=60)
                                                                                                                 GATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACA                                        <  NB501016:230:HFVJLAFXY:2:21102:6484:15985/151‑1 (MQ=60)
                                                                                                                 GATTTAGCGTGATTTTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAA                                                                         >  NB501016:230:HFVJLAFXY:4:21401:23677:6102/1‑118 (MQ=47)
                                                                                                                               TTGTAGGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTTATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTTGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAAC                           <  NB501016:230:HFVJLAFXY:1:21205:17442:18083/150‑1 (MQ=60)
                                                                                                                                    GGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTGAACCAGTGC                     <  NB501016:230:HFVJLAFXY:4:21610:3833:16240/151‑1 (MQ=60)
                                                                                                                                    GGTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGC                     <  NB501016:230:HFVJLAFXY:1:21209:9528:12015/151‑1 (MQ=60)
                                                                                                                                     GTCGGATAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGC                     >  NB501016:230:HFVJLAFXY:4:11401:11520:19051/1‑150 (MQ=60)
                                                                                                                                         GATAAGGCGTTTACGCCGCATCCGAAATCAATGCCTGATTCGACGCTTGCCGCGTCTTATCAGGCCTATCTTACCCGTTGGTTAATTTTTCAAACTCTTCACCCCCGGTATCAAACCCTTCCATACAGCTAAGGTTCAACCAGGGCATCGC                >  NB501016:230:HFVJLAFXY:2:21112:2522:1099/1‑151 (MQ=60)
                                                                                                                                           TAAGGCGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCT              >  NB501016:230:HFVJLAFXY:3:21610:9411:12502/1‑151 (MQ=60)
                                                                                                                                                CGTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCTTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGC         <  NB501016:230:HFVJLAFXY:2:21107:6799:4320/151‑1 (MQ=60)
                                                                                                                                                 GTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGagatcggaagagcacacgtcttgaac        >  NB501016:230:HFVJLAFXY:4:21409:24954:15511/1‑125 (MQ=60)
                                                                                                                                                 GTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGT                       >  NB501016:230:HFVJLAFXY:3:11406:10291:14015/1‑136 (MQ=60)
                                                                                                                                                 GTTTACGCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACC                                                              <  NB501016:230:HFVJLAFXY:3:21603:23175:13267/97‑1 (MQ=60)
                                                                                                                                                     acgCCGCATCAGACATCATTGCGTGATGCGACGCTTGCCTCGTCTTATCAGGCCTATCTTAACCGTTGGTTAATTTTTCAAACTCTTCACACCCGGTATAAAACCCTTCCATACAGCTCAGGTTCAACCAGTGCAGCGCCTTTTGCTTGT     <  NB501016:230:HFVJLAFXY:4:21506:19536:1212/147‑1 (MQ=60)
                                                                                                                                                     G‑‑CCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTAAACCGTTGGTTAATTTTTCAAAATCTTCACACCCGGTATCAAACCCTTCCATACAGCTCAGGTTCAACCAGTTCAGCGCCTTTTGCTTGTTCT  >  NB501016:230:HFVJLAFXY:1:11207:6408:17467/1‑151 (MQ=60)
                                                                                                                                                      cgCCGCATCCGACATCAATGCCTGATGCGACGCTTGCCGCGTCTTATCAGGCCTATCTTAACCGTTGG                                                                                      <  NB501016:230:HFVJLAFXY:3:11606:15540:5756/66‑1 (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: ‑