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
A5 F1 I2 R1 77 34.8 1608548 95.0% 1528120 114.2

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,139,583 G→A R286H (CGT→CAT)  yghU → putative S‑transferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,139,5830GA100.0% 69.0 / NA 21R286H (CGT→CAT) yghUputative S‑transferase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (9/12);  total (9/12)

TGGGCGTATTGTTAACCGCACCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCGTCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATC  >  NC_000913/3139488‑3139695
                                                                                               |                                                                                                                
tGGGCGTATTGTTAACCGCACCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGc                                                                       <  2:627894/139‑1 (MQ=255)
     gTATTGTTAACCGCACCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGAt                                                                  <  2:202343/139‑1 (MQ=255)
                 gCACCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAg                                                                                 <  1:203644/112‑1 (MQ=255)
                 gCACCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAg                                                                                 >  2:203644/1‑112 (MQ=255)
                  cACCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCAcgc                                                     >  2:212325/1‑139 (MQ=255)
                   aCCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGt                                                                                                          >  1:197619/1‑85 (MQ=255)
                   aCCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGt                                                                                                          <  2:197619/85‑1 (MQ=255)
                           aCCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCgg                                            >  1:742719/1‑139 (MQ=255)
                             cGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCa                                          >  2:68200/1‑139 (MQ=255)
                             cGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCa                                          >  2:409669/1‑139 (MQ=255)
                               cTGAATGAGCAGTTGCATGAGCACCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAg                                                                                 >  1:643676/1‑98 (MQ=255)
                               cTGAATGAGCAGTTGCATGAGCACCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAg                                                                                 <  2:643676/98‑1 (MQ=255)
                                 gAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCg                                      <  2:11955/139‑1 (MQ=255)
                                   aTGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTg                                    <  2:742719/139‑1 (MQ=255)
                                                tGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGt                                                                                                          >  1:691317/1‑56 (MQ=255)
                                                tGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGt                                                                                                          <  2:691317/56‑1 (MQ=255)
                                                 gAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTGCACAATGCCTGATg                      <  1:212325/139‑1 (MQ=255)
                                                     gcCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTGCACAATGCCTGATGCGAc                  >  2:552454/1‑139 (MQ=255)
                                                             gCCAGTGATTTCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCcgc          <  1:409669/139‑1 (MQ=255)
                                                                     tttCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATc  <  2:61898/139‑1 (MQ=255)
                                                                     tttCGAGACGAATACGGAAGATAAGCATCAGGGGTAAGGGTTGGTGTTCGTCGCAGAAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATc  <  1:552454/139‑1 (MQ=255)
                                                                                               |                                                                                                                
TGGGCGTATTGTTAACCGCACCAACGGACCGCTGAATGAGCAGTTGCATGAGCGCCATGACGCCAGTGATTTCGAGACGAATACGGAAGATAAGCGTCAGGGGTAAGGGTTGGTGTTCGTCGCAGCAAGCCATCCAGGCCGGATAAGGCGTTCACGCCGCATCCGGCAATCGTGCACAATGCCTGATGCGACGCTGCCGCGTCTTATC  >  NC_000913/3139488‑3139695

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A