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 F79 I1 R1 61 81.5 3485072 98.6% 3436280 145.0

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
CCCGCCCCAACTGGATGAGCTGCAGCGTAAAGCAGACGAGCGCGCCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCTCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACGTGGTCAGTGGCGACGACCCGCTGCTGTGCCAGGAAGCCGCCGACGCCATCCGCAATGCCGCGCG  >  NC_002947_CJ‑RC/5462225‑5462521
                                                                                                                                                      |                                                                                                                                                  
CCCGCCCCAACTGGATGAGCTGCAGCGTAAAGCAGACGAGCGCGCCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCG                                                                                                                                                    >  NB501016:282:H2V7GAFX2:4:11501:6968:5260/1‑151 (MQ=60)
   GCCCCAACTGGATGAGCTGCAGCGTAAAGCAGACGAGCGCGCCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCTCGG                                                                                                                                                 <  NB501016:282:H2V7GAFX2:3:21606:4088:1375/151‑1 (MQ=60)
                   CTGCAGCGTAAAGCAGACGAGCGCGCCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCTCGGGCGCCCCGCCGGTTCC                                                                                                                                 >  NB501016:282:H2V7GAFX2:1:11112:8410:16969/1‑151 (MQ=60)
                              AGCAGACGAGCGCGCCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCGCGGGCGCCCCGCCgggtcccccagcaacac                                                                                                                      >  NB501016:282:H2V7GAFX2:4:21508:13739:8836/1‑134 (MQ=60)
                                      AGCGCGCCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCACGGGCGCCCCGCCggttgccccacaaaaaacccccccc                                                                                                              >  NB501016:282:H2V7GAFX2:4:21505:23843:3973/1‑126 (MQ=60)
                                       GCGCGCCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGGGCCCGCGGGCGCCCCGCCgggtgccccgggaacaagcccccccc                                                                                                             >  NB501016:282:H2V7GAFX2:4:21411:5324:14427/1‑125 (MQ=60)
                                            CCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGGGCCCCCGGGGGCCCCGCCcggtggccccgcaacacgccccccccccccc                                                                                                        >  NB501016:282:H2V7GAFX2:2:11309:23318:9519/1‑120 (MQ=60)
                                            CCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCTCGGGCGCCCCGCCGGTTGCCCCGGAAACTCGCCCCCGCCCcacc                                                                                                        >  NB501016:282:H2V7GAFX2:4:11512:8337:9300/1‑147 (MQ=60)
                                            CCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCGCGGGCGCCCCGCCGGGTCCCCAAGAAACTCG                                                                                                                     >  NB501016:282:H2V7GAFX2:1:11210:15602:19671/1‑138 (MQ=60)
                                                cgcctatGCTGCCGCGGTGGTGGCTGCCCGCCGCCACAAAGCCGACACGCCTCACCAAGCGCCATTTGAAGTACCGGCAAACTAAGCCCGCGAGGGGCGCCCGCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAAC                                                                                                    <  NB501016:282:H2V7GAFX2:4:11509:2991:15396/144‑1 (MQ=60)
                                                 GCCGATGCTCCCGGGGTGGAGGCGGCCCGCGGCCAGAAAGCCGACACGCCTCACCAATCCCCAATGTAAGTACCGGGCAAATACGCCGGCGGGGGGCGCCAGGGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACA                                                                                                   <  NB501016:282:H2V7GAFX2:4:21605:12795:16226/151‑1 (MQ=53)
                                                   CGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGGGCCCGCGGGCGCCCCGCCgggtggcccgggaacaggccccccccccccacacccac                                                                                                 >  NB501016:282:H2V7GAFX2:3:21502:26258:18209/1‑113 (MQ=60)
                                                       ggtgcgggGCTGGAGTCTGCCGGCCGCCAGCAAGCGGAGAGGCCTCAGCATTCGCCAGTGTATGTCCGGGGCAACTAAGCGGGGGTGGGGCGCCCTCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACC                                                                                             <  NB501016:282:H2V7GAFX2:3:21506:13584:9724/143‑1 (MQ=60)
                                                                 TGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGGGGCCGCGGGCGCCCCcccgggggccccgggaacgcgcccccccccccccccccaaaccccagccaagcgc                                                                                   >  NB501016:282:H2V7GAFX2:3:21506:15593:12720/1‑96 (MQ=60)
                                                                     GGCTGCCCGCCGCCACAAAGCCGAGACGCCTCACAAATCGCCACTGCAAGTACCGGCAAACTACGCCCGCGCGGGGCGCCCTCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTG                                                                               <  NB501016:282:H2V7GAFX2:2:11304:8382:16480/151‑1 (MQ=60)
                                                                      gggccccgccgccacaaagccgacccgcctcaccaagcgcccctgcaagacccggccaacaacgcccgggcGGGGCGCCCGGGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGG                                                                              <  NB501016:282:H2V7GAFX2:2:11306:20099:3590/80‑1 (MQ=60)
                                                                      gcgccccgcccccatcatgcctagcCGCCTCACCAATCGCCACTGTAAGTACCGGCCAACTACGCCCGGGTGGGGCGCCCGGGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGG                                                                              <  NB501016:282:H2V7GAFX2:3:21405:17405:9301/126‑1 (MQ=60)
                                                                       CTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGGGCCCTCGGGCGCCCCGCCGGGTGCCCCAGAAACTACCCCCCGCCCAACGCAACAAGCACCTGGAAGGCGCCCgggg                                                                             >  NB501016:282:H2V7GAFX2:4:21402:2849:7480/1‑147 (MQ=60)
                                                                          CCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCTCGTGCGCCCCGCCGGTTCCCCATGAAACTCGCCCCCCCCCAACACAACAAGCACCAGCCAGGCGCCCAGGCACC                                                                          >  NB501016:282:H2V7GAFX2:2:11311:15239:9289/1‑151 (MQ=60)
                                                                                  CAGCAAGCCGAGCCGCCTCAGCAATCGCCACTGGAATAACCGGGCAACTAAGCCCGCGAGGGGCGCCCGCGGGGGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACG                                                                  <  NB501016:282:H2V7GAFX2:4:21412:7069:19713/151‑1 (MQ=60)
                                                                                  CAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCTCGGGCCCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACC                                                                          <  NB501016:282:H2V7GAFX2:2:11311:7284:9618/143‑1 (MQ=60)
                                                                                   AGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCGCGGGCGCCCCGCCagttggcccgaaaaaaaccccccccccaacccaacaaaccccagccaaccgccccggcgcccggctaacg                                                                 >  NB501016:282:H2V7GAFX2:1:11108:1948:7574/1‑81 (MQ=60)
                                                                                          CGAGACGCCTCAGCAATCCCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCGCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACGTGGTCAGT                                                          <  NB501016:282:H2V7GAFX2:3:11602:9086:6431/151‑1 (MQ=60)
                                                                                           cccccccctcacaaaccccccctgtaagacccggcaaaataccCCCGCGTGGGGCGCCCGGGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACGTGGTCAGTG                                                         <  NB501016:282:H2V7GAFX2:3:11404:19300:7848/108‑1 (MQ=60)
                                                                                            cgcCGCCTCAGCAATCGCCACTGGAAGTACCGGGAAACAAAGCCCGCGTGGGGCGCCCTGGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACGTGGTCAGTGG                                                        <  NB501016:282:H2V7GAFX2:3:11512:15496:9240/148‑1 (MQ=60)
                                                                                                  CTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGGGCCCCCCGGCGCCCCccccgggggcccccaaaaacacccccccccccaccaacaaaacacacaaacccccccccgcccccgccgaaggggggagggggggccc                                                  >  NB501016:282:H2V7GAFX2:3:21412:8028:8428/1‑63 (MQ=60)
                                                                                                     AGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCACCGGCGCCCCcccggttgccccagaaaaaagccccccccccacacaacaaacaccagccacgcccccccgcccccgggtacgtggtgaggggggccccccc                                               >  NB501016:282:H2V7GAFX2:1:11104:25985:7351/1‑60 (MQ=60)
                                                                                                        AATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGGCCACGGGCGCCCCcccggttggcccgggaaaaacccccccccccacacaaaaaccccccgccacgccccccgggccccggggaaggggggaggtggggccccccccc                                            >  NB501016:282:H2V7GAFX2:4:11410:9364:11475/1‑57 (MQ=60)
                                                                                                          ACGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCTCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACGTGGTCAGTGGCGACGACCCGCTGC                                          <  NB501016:282:H2V7GAFX2:3:11501:6159:2301/151‑1 (MQ=60)
                                                                                                                CTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGGGCCCGCCGGCGCCCCccccggtgcccaagaaaaaaaccccccccccccacaacaacaacccccccagcccccccgcccccggcgccggggggagggggggccgcccccggcggtggc                                    >  NB501016:282:H2V7GAFX2:2:21108:24287:15977/1‑49 (MQ=60)
                                                                                                                                 aaacgccgGCGAGGGGCGCCGGCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACGTGGTCAGTGGCGACGACCCGCTGCTGTGCCAGGAAGCCGCCGACGCC                   <  NB501016:282:H2V7GAFX2:3:21610:12035:13853/143‑1 (MQ=60)
                                                                                                                                       CCGCGAGGGGCGCCCTCGGGCGCCCCGCCTGTTGCCCATGAAACAAGCCCCCCCCCAACACAACAAGCACCAGCAAGGCGCCCGGGCACCGGGGTAAGTGGTCAGTGGCGACGCCCCGCGGCGGTGCCAGGAAGCCGCCccccccctacgc             >  NB501016:282:H2V7GAFX2:3:21610:22081:13215/1‑139 (MQ=60)
                                                                                                                                                GCGCCCTCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACGTGGTCAGTGGCGACGACCCGCTGCTGTGCCAGGAAGCCGCCGACGCCATCCGCAATGCCGCG    <  NB501016:282:H2V7GAFX2:1:21211:1599:9654/151‑1 (MQ=60)
                                                                                                                                                  GCCCTCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCCACTCAACAAGCACCTGCAACGCGCCCTGGCACCGGTCTACGTGGTCAGTGGCGACGACCCGCTGCTGTGCCAGGAAGCCCCCGACGCCATCCGCAATGCCGCGCC  >  NB501016:282:H2V7GAFX2:2:11102:4113:19457/1‑151 (MQ=60)
                                                                                                                                                  GCCCTCGGGCGCCCCGCCTGTTCCCCATGAAACTAGCCCCCCCCCAACTCAAAAAGCACCAGCAAGGCGCCCTGGCCCCGGTCTACGTGGTCAGTGGCGACGACCCGCTGCTGTGCCAGGAAGCCGCCGACGCCATCCGCAATGCCGCGCG  >  NB501016:282:H2V7GAFX2:4:21510:15556:10680/1‑151 (MQ=60)
                                                                                                                                                      |                                                                                                                                                  
CCCGCCCCAACTGGATGAGCTGCAGCGTAAAGCAGACGAGCGCGCCCAAGCCGAAGCTGCCGCGCTGGAGGCTGCCCGCCGCCAGCAAGCCGAGACGCCTCAGCAATCGCCACTGGAAGTACCGGGCAACTAAGCCCGCGAGGGGCGCCCTCGGGCGCCCCGCCTGTTCCCCATGAAACTCGCCCCCGCCCAACTCAACAAGCACCTGCAAGGCGCCCTGGCACCGGTCTACGTGGTCAGTGGCGACGACCCGCTGCTGTGCCAGGAAGCCGCCGACGCCATCCGCAATGCCGCGCG  >  NC_002947_CJ‑RC/5462225‑5462521

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 0 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑