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
A0 F0 I1 R1 61 39.0 4165548 97.4% 4057243 49.6

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CCCGTATGGCGCTGCTGACCCGCAGCCGCCAGAATGCCATCTACCAGAATCTGACGGTGCCGCAAATCGTCGAAAAAATCCTGC  >  NC_017635/3115077‑3115160
                                        |                                           
CCCGTATGGCGCTGCTGACCCGCAGCCGCCAGAATGCCATTTACCAGAACC                                   >  M01420:85:000000000‑AC936:1:1109:6823:12429/1‑51 (MQ=19)
 CCGTATGGCGCTGCTGACCCGCAGCCGCCAGAATGCCATTTACCAGAACC                                   >  M01420:85:000000000‑AC936:1:1114:25257:17892/1‑50 (MQ=16)
   GTATGGCGCTGCTGACCCGCAGCCGCCAGAATGCCATTTACCAGAAccaga                                <  M01420:85:000000000‑AC936:1:2105:10309:8920/51‑6 (MQ=25)
   GTATGGCGCTGCTGACCCGCAGCCGCCAGAATGCCATTTACCAGAACC                                   >  M01420:85:000000000‑AC936:1:1104:9883:11635/1‑48 (MQ=24)
                GACCCGCAGCCGCCAGAATGCCATTTACCAGAACCAGACTGTGCCGCAAAT                   <  M01420:85:000000000‑AC936:1:1113:25669:20419/51‑1 (MQ=30)
                  CCCGCAGCCGCCAGAATGCCATTTACCAGAACCAGACTGTGCCGCAAATCG                 >  M01420:85:000000000‑AC936:1:2105:16590:22640/1‑51 (MQ=0)
                              AGAATGCCATTTACCAGAACCAGACTGTGCCGCAAATCGTCGAAAAAATCC     >  M01420:85:000000000‑AC936:1:1101:9681:26310/1‑51 (MQ=0)
                              AGAATGCCATCTACCAGAATCTGACGGTGCCGCAAATCGTCGAAAAAATCC     >  M01420:85:000000000‑AC936:1:2103:16549:24068/1‑51 (MQ=0)
                               GAATGCCATTTACCAGAACCAGACTGTGCCGCAAATCGTCGAAAAAATCCT    >  M01420:85:000000000‑AC936:1:1114:18972:22957/1‑51 (MQ=0)
                                 ATGCCATCTACCAGAATCTGACGGTGCCGCAAATCGTCGAAAAAATCCTGC  <  M01420:85:000000000‑AC936:1:1106:25165:8535/51‑1 (MQ=0)
                                        |                                           
CCCGTATGGCGCTGCTGACCCGCAGCCGCCAGAATGCCATCTACCAGAATCTGACGGTGCCGCAAATCGTCGAAAAAATCCTGC  >  NC_017635/3115077‑3115160

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑