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 F53 I1 R1 62 81.2 3465250 98.6% 3416736 145.3

Breseq alignment

N/A

GATK/CNVnator alignment

BRESEQ :: bam2aln output
GTCTTCTGCCGGGGCCATGCGGTCCAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTCCTTGACCCAATGCTTGGCCTCGACAGCGGGCAAGAAGCCCTCATGGGCAGCG  >  NC_002947_CJ‑RC/2101615‑2101897
                                                                                                                                        |                                                                                                                                                  
GTCTTCTGCCGGGGCCATGCGGTCCAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCG                                                                                                                                      <  NB501016:282:H2V7GAFX2:1:11301:12519:8456/151‑1 (MQ=60)
      TGCCGGGGCCATGCGGTCCAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCGGGCTGG                                                                                                                                >  NB501016:282:H2V7GAFX2:4:11404:1543:7917/1‑151 (MQ=60)
       GCCGGGGCCATGCGGTCCAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGAAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCGGGCTGG                                                                                                                                <  NB501016:282:H2V7GAFX2:2:11306:8137:12468/150‑1 (MQ=60)
              ccttgggggccagtccgTGGGCATTGGCCCGGGCCAACAGTTTCTCAACATACGCCAGATGCTCTTCATACACCTTCGGCGCCGGCTGCTGGCGCAAATCCTGCACGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCGGGCTGGCCTTTTTG                                                                                                                        <  NB501016:282:H2V7GAFX2:4:11506:6355:18705/134‑1 (MQ=60)
                ATGCGGTCCAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCGGGCCGGGCgggccgtttttat                                                                                                                      >  NB501016:282:H2V7GAFX2:2:11209:23167:19486/1‑138 (MQ=60)
                 TGCGGTCCAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCGGGCCGGGCTGGGCTTTTTTC                                                                                                                       >  NB501016:282:H2V7GAFX2:1:21209:25845:15164/1‑149 (MQ=60)
                   CGGTCCAGTACCTGGGCATTGGCCCGGGCCAAAAGTTTATAAAGATAAGTCAGCTGCTCTTAATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGATCGAAGGCCCGGCGCGCCggggccggcagggcggtttttaagg                                                                                                                   >  NB501016:282:H2V7GAFX2:2:11310:6753:18630/1‑126 (MQ=60)
                       CCAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCTGGCCGGGCggggctgtttggaggggctg                                                                                                               >  NB501016:282:H2V7GAFX2:1:11208:12989:14144/1‑131 (MQ=60)
                        CAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCAGGCCGGGCTGGCCGTTTTGCAGGGCCTGT                                                                                                              >  NB501016:282:H2V7GAFX2:4:11405:8298:11986/1‑151 (MQ=60)
                         cccatattcgcgtagtgacttttgtcccgtgtttggctctacctttcttgctattaaaacacgttgggctccggctgcgggctaAAATACTCCACCCCGCGCTCGACGCCCCGGCGCGCCGGGCCGGGCTGGCCTTTTTGCAGGGCCTGT                                                                                                              <  NB501016:282:H2V7GAFX2:2:21211:1583:6757/66‑1 (MQ=36)
                         AGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCGGGCCGGGCggggggtcgggagagcacccgg                                                                                                             >  NB501016:282:H2V7GAFX2:4:21408:19491:16507/1‑129 (MQ=60)
                             CCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCTGGCCGGGCTGGgcggtttggagggccgggtgggc                                                                                                         >  NB501016:282:H2V7GAFX2:3:11502:13994:16035/1‑128 (MQ=60)
                             CCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCCGGCCGGGCggggcggttttgaggggcgggtgggg                                                                                                         >  NB501016:282:H2V7GAFX2:2:11103:5365:20211/1‑125 (MQ=60)
                                GGGCATTGGCCCGGGCCAACATTTTCTCAACATCCGCCACCTGCTCTTCAACCACCTTCGGCTCCGGCTGCTTGCTCAAATACTCCCCGCCGCGCTCTACGGCCCGGCGCGCCTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAG                                                                                                      <  NB501016:282:H2V7GAFX2:4:21502:14455:7208/151‑1 (MQ=60)
                                 GTCATGGGCCCGGGCCAACATTTTCTCAATATACGACCGCTGCTCTACATACACCTTCGGCGCCGGCTGCTTGCGCAAATCCTGCCCGCCGCGCTCGACGGCCAGGCGCGCCTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGG                                                                                                     <  NB501016:282:H2V7GAFX2:3:21507:14247:18875/151‑1 (MQ=60)
                                 GGCTTGGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCGCCGGCTGCTTGCGCAAATACTGCCCGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGG                                                                                                     <  NB501016:282:H2V7GAFX2:3:21604:2786:8628/151‑1 (MQ=60)
                                  GCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCGGGCCGGGCgggccggtttggagggccgggtgggcggggg                                                                                                    >  NB501016:282:H2V7GAFX2:2:21311:12440:4738/1‑120 (MQ=60)
                                        GCCCGGGCCAACTTTTTCTCAAGATCCGTCAGCTGCTCTTAATCCACCTTCGGCTCCGTCTTCTTGCTCAAATACTCCCCGCCGCGCTCGACGGCCCGGCGCGCCGGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGA                                                                                              <  NB501016:282:H2V7GAFX2:2:21302:10361:1812/151‑1 (MQ=60)
                                         CCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCCGCGCGCCGGGCCGGGCTGGCCGTTTTGCAGGGCCGGTTGGGCGCGGGTGTTGA                                                                                              >  NB501016:282:H2V7GAFX2:1:21112:14167:1301/1‑150 (MQ=60)
                                          CCGGGCCAACATTTACTCAACAACCGTCCGCTGCTCTTCATCCACCTGCGGCGCCGGCGGCTTGCCCAAATCCTCCCCGCCGCGCTCGACGGCCCGGCGCGCCGGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAG                                                                                            <  NB501016:282:H2V7GAFX2:3:11408:14612:19724/151‑1 (MQ=60)
                                             gcccaacattttcacaacttcCGTCAGCTGCTCTACAAACCCCTTCGGCGCCGGCTGCTTCCGAAAATACTCCCCGCCGCGCGCGCTGGCCCGGCGCGCCGGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAAC                                                                                         <  NB501016:282:H2V7GAFX2:4:21603:2012:9280/130‑1 (MQ=60)
                                                  ACAGTTTCACAAGATACGTCCGGTGCTCTTCAAACACCTTCGGCTCCGGCTGCTTGCGAAAATCCTGCCCGCCGCGCTCCACGGCCCGGCGCGCCGGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAACTCTAT                                                                                    <  NB501016:282:H2V7GAFX2:4:11502:9104:16078/151‑1 (MQ=60)
                                                                  CGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGTGCCTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGATCTCTATATGCAGCAGCACCAGG                                                                    >  NB501016:282:H2V7GAFX2:3:21508:26637:20035/1‑151 (MQ=60)
                                                                              aacaaccccctgcggccCCGGCTGCTTGCGAAAATACTCCCCGCCGCGCTCGCCGGCCCGGCGCGCCGGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATT                                                        <  NB501016:282:H2V7GAFX2:2:11204:3825:16853/134‑1 (MQ=60)
                                                                                CATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCACGCGCGCCTGGCCCGGCGGGGCTTTTTGCAaggcggggtggccgaggtggttttaggagtcaatatgcagcagcccaagggttaggcggattt                                                       >  NB501016:282:H2V7GAFX2:3:21401:6974:18712/1‑87 (MQ=60)
                                                                                 ATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCGGGCTGGCCGTTTTGCAGGGCCTGTTTGCCGAGGTTGTTGAAGAACTCAATATGCAGCAGCACCAGGATATGGCGGATTTA                                                      >  NB501016:282:H2V7GAFX2:2:11307:13179:11737/1‑150 (MQ=60)
                                                                                   ACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCTGGCCGGGCGGGCCTTTTTTCAGGGGCTGGTGGCCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTACTT                                                   >  NB501016:282:H2V7GAFX2:2:21108:7736:15272/1‑151 (MQ=60)
                                                                                            GCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCTGGCCGGGCTGGCCTTTTTGCCGGGCCGGTTGGCCGAGGGTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTCCTTGACCCAATT                                          >  NB501016:282:H2V7GAFX2:4:11408:1154:9358/1‑151 (MQ=60)
                                                                                            GCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCGGGCGGGCCGTTTTGCAGGGGCTGTTGGGCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTCCTTGACCCAATT                                          >  NB501016:282:H2V7GAFX2:4:11407:26735:9355/1‑151 (MQ=60)
                                                                                               ccggctggttgccaaaatcctcccCGCCGCGCTCGCCGGCCCGGCGCGCGTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTCCTTGACCCAATGCTT                                       <  NB501016:282:H2V7GAFX2:3:21401:7124:16790/127‑1 (MQ=60)
                                                                                                   GTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCCGGCGCGCCTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTCCTTGACCCAATGCTTGGCC                                   <  NB501016:282:H2V7GAFX2:2:21312:1672:2850/151‑1 (MQ=60)
                                                                                                          CGCAAATACTGCACGCCGCGCTCGAAGGCCCCGCGCCCCTGGCCGCGCGGGCCTTTTTTCAGCGGCTGGTGGCCGAGGTGGTTGAAtaacacaatataaagcaccaccacgataaggcgtaattacttgaccaaatgcttgggaacgaca                             >  NB501016:282:H2V7GAFX2:1:11312:20698:18411/1‑86 (MQ=28)
                                                                                                                                CGATGGCCAGGCGCGCGGGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTCCTTGACCCAATGCTTGGCCTCGACAGCGGGCAAGAAGCCCTCATGGGC      <  NB501016:282:H2V7GAFX2:4:21608:24028:4961/151‑1 (MQ=60)
                                                                                                                                    GGCCAGGCGCGCCTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTCCTTGACCCAATGCTTGGCCTCGACAGCGGGCAAGAAGCCCTCATGGGCAGCG  >  NB501016:282:H2V7GAFX2:3:21611:12861:13334/1‑151 (MQ=60)
                                                                                                                                        |                                                                                                                                                  
GTCTTCTGCCGGGGCCATGCGGTCCAGTACCTGGGCATTGGCCCGGGCCAACAGTTTCTCAAGATACGTCAGCTGCTCTTCATACACCTTCGGCTCCGGCTGCTTGCGCAAATACTGCACGCCGCGCTCGAAGGCCAGGCGCGCCTGGCCGGGCTGGCCTTTTTGCAGGGCCTGTTGGCCGAGGTTGTTGAAGAACTCTATATGCAGCAGCACCAGGATATGGCGGATTTCCTTGACCCAATGCTTGGCCTCGACAGCGGGCAAGAAGCCCTCATGGGCAGCG  >  NC_002947_CJ‑RC/2101615‑2101897

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: ‑