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 F2 I226 R1 11 18.7 1257054 96.4% 1211800 86.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CTTCCGTGAAGGTCTGAACGTACTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCCATGAAGGTATCATGATGAC  >  NZ_CP009273/4177563‑4177745
                                                                                         |                                                                                             
CTTCCGTGAAGGTCTGAACGTACTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTAC                                                                                     >  SRR3722110.579376/1‑100 (MQ=60)
          GGTCTGAACGTACTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTC                                                                           >  SRR3722110.518555/1‑100 (MQ=60)
                 ACGTACTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGC                                                                    <  SRR3722110.7454/100‑1 (MQ=60)
                     ACTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGAC                                                                <  SRR3722110.8875/100‑1 (MQ=60)
                      CTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACG                                                               >  SRR3722110.501142/1‑100 (MQ=60)
                      CTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACG                                                               >  SRR3722110.328123/1‑100 (MQ=60)
                      CTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACG                                                               >  SRR3722110.483379/1‑100 (MQ=60)
                      CTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACG                                                               >  SRR3722110.91056/1‑100 (MQ=60)
                       TCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGT                                                              <  SRR3722110.266119/100‑1 (MQ=60)
                        CCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGGG                                                             >  SRR3722110.565763/1‑100 (MQ=60)
                           GTACTTCATCTCCACCCACGGTGCTCGT‑AAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGC                                                         >  SRR3722110.630189/1‑100 (MQ=60)
                            TACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGC                                                         <  SRR3722110.276573/100‑1 (MQ=60)
                             ACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCA                                                        >  SRR3722110.300229/1‑100 (MQ=60)
                                 agTCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGAC                                                    <  SRR3722110.428676/98‑1 (MQ=60)
                                  ATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACC                                                   >  SRR3722110.235214/1‑100 (MQ=60)
                                       CACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTG                                              >  SRR3722110.343549/1‑100 (MQ=60)
                                       CACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTG                                              >  SRR3722110.65460/1‑100 (MQ=60)
                                               GTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGA                                      >  SRR3722110.20009/1‑100 (MQ=60)
                                                    CGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACG                                 >  SRR3722110.511706/1‑100 (MQ=60)
                                                    CGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACG                                 >  SRR3722110.329226/1‑100 (MQ=60)
                                                      TAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGAT                               <  SRR3722110.53616/100‑1 (MQ=60)
                                                                GCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCC                     <  SRR3722110.352007/100‑1 (MQ=60)
                                                                GCGGATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCC                     <  SRR3722110.18211/100‑1 (MQ=60)
                                                                   GATACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCCATG                  <  SRR3722110.539655/100‑1 (MQ=60)
                                                                      ACCGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCCATGAAG               <  SRR3722110.450155/100‑1 (MQ=60)
                                                                        CGCACTGAAAACTGCGAGCTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCCATGAAGGT             <  SRR3722110.270295/100‑1 (MQ=60)
                                                                         GCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCCATGAAGGTA            >  SRR3722110.17364/1‑100 (MQ=60)
                                                                                   CTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCCATGAAGGTATCATGATGAC  <  SRR3722110.69591/100‑1 (MQ=60)
                                                                                         |                                                                                             
CTTCCGTGAAGGTCTGAACGTACTCCAGTACTTCATCTCCACCCACGGTGCTCGTAAAGGTCTGGCGGATACCGCACTGAAAACTGCGAACTCCGGTTACCTGACTCGTCGTCTGGTTGACGTGGCGCAGGACCTGGTGGTTACCGAAGACGATTGTGGTACCCATGAAGGTATCATGATGAC  >  NZ_CP009273/4177563‑4177745

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑