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
A6 F48 I1 R1 61 74.3 2613450 99.1% 2589928 139.8

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 283,803 G→T V201V (GTG→GTT)  yagF → CP4‑6 prophage; D‑xylonate dehydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913283,8030GT100.0% 53.2 / NA 17V201V (GTG→GTT) yagFCP4‑6 prophage; D‑xylonate dehydratase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (10/7);  total (10/7)

CGTAGCGACCTGCGATAAAGGGCTGCCCGCCACCATGATTGCGCTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTGCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGCGGCGGGTGTCAGTTCCTCGGCACGGCGGGCACCTCGCAGGTGGTCGCGG  >  NC_000913/283674‑283939
                                                                                                                                 |                                                                                                                                        
cGTAGCGACCTGCGATAAAGGGCTGCCCGCCACCATGATTGCGCTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCg                                                                                                                                >  2:751092/1‑140 (MQ=255)
                         cccGCCACCATGATTGCGCTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCACGGTTCAGACCATCGGCGCGCGTTTCTCCAACCACGaaat                                                                                                       >  2:731160/1‑138 (MQ=255)
                         cccGCCACCATGATTGCGCTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAAct                                                                                                       <  1:211544/140‑1 (MQ=255)
                         cccGCCACCATGATTGCGCTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAAct                                                                                                       <  2:1180438/140‑1 (MQ=255)
                                     aTTGCGCTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCagga                                                                                           <  1:751092/140‑1 (MQ=255)
                                        gcgcTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGgc                                                                                        >  2:329029/1‑140 (MQ=255)
                                          gcTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGgccg                                                                                      <  1:823586/140‑1 (MQ=255)
                                           cTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGgccgc                                                                                     >  2:85723/1‑140 (MQ=255)
                                           cTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGgccgc                                                                                     >  2:1045366/1‑140 (MQ=255)
                                           cTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGgccgc                                                                                     >  2:1007870/1‑140 (MQ=255)
                                                                               ccGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGggcgg                                                 <  1:329029/140‑1 (MQ=255)
                                                                                 gggcggggcgACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGgcggcg                                               <  1:731160/140‑1 (MQ=255)
                                                                                  ggcggggcgACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGcggcgg                                              >  2:1152142/1‑140 (MQ=255)
                                                                                      gggcgACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGCGGCGGgtgt                                          >  2:687544/1‑140 (MQ=255)
                                                                                                                    aCGCGGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGCGGCGGGTGTCAGTTCCTCGGCACGGCGGGCACCTCGCAg            <  1:1045366/140‑1 (MQ=255)
                                                                                                                      gcgGGCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGCGGCGGGTGTCAGTTCCTCGGCACGGCGGGCACCTCGCAggt          >  2:134621/1‑140 (MQ=255)
                                                                                                                         ggCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGCGGCGGGTGTCAGTTCCTCGGCACGGCGGGCACCTCGCAgggggg       >  2:821563/1‑139 (MQ=255)
                                                                                                                         ggCAAGGTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGCGGCGGGTGTCAGTTCCTCGGCACGGCGGGCACCCCGCAggtggt       >  1:308183/1‑140 (MQ=255)
                                                                                                                              ggTTCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGCGGCGGGTGTCAGTTCCTCGGCACGGCGGGCACCTCGCAGGTGGTCGCgg  <  2:664170/140‑1 (MQ=255)
                                                                                                                                 |                                                                                                                                        
CGTAGCGACCTGCGATAAAGGGCTGCCCGCCACCATGATTGCGCTGGCCGCGATGCACGACCTGCCGACTATTCTGGTGCCGGGCGGGGCGACGCTGCCGCCGACCGTCGGGGAAGACGCGGGCAAGGTGCAGACCATCGGCGCGCGTTTCGCCAACCACGAACTCTCCCTGCAGGAGGCCGCCGAACTGGGCTGTCGCGCCTGCGCCTCGCCGGGCGGCGGGTGTCAGTTCCTCGGCACGGCGGGCACCTCGCAGGTGGTCGCGG  >  NC_000913/283674‑283939

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A