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 F1 I1 R1 67 31.4 1402038 96.1% 1347358 109.5

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 1,718,641 G→A A321V (GCC→GTC)  anmK ← anhydro‑N‑acetylmuramic acid kinase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,718,6410GA100.0% 60.8 / NA 19A321V (GCC→GTC) anmKanhydro‑N‑acetylmuramic acid kinase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (11/8);  total (11/8)

AATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACGGAAGGCAGATTTCCTGGTAATCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGGCATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCAATCGTTCGCAGCCACCGCTCAACAAAACTTGTTCAGAAATGGT  >  NC_000913/1718511‑1718774
                                                                                                                                  |                                                                                                                                     
aaTAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACGGAAGGCAGATTTCCTGGTAATCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCggtg                                                                                                                               <  2:505852/139‑1 (MQ=255)
                gTCTCCTGGCTTGCGCCAGTGACGGAAGGCAGATTTCCTGTTAATCCCGCCAGCGTCCGCCAAGCAAGCCAGGCGAAAGCCAATGCTTCCAAGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGc                                                                                                               >  2:415997/1‑139 (MQ=255)
                   tcCTGGCTTGCGCCAGTGACGGAAGGCAGATTTCCTGGTAATCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTg                                                                                                            >  2:231840/1‑139 (MQ=255)
                             cgcCAGTGACGGAAGGCAGATTTCCTGGTAATCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCtg                                                                                                                  <  1:315178/123‑1 (MQ=255)
                             cgcCAGTGACGGAAGGCAGATTTCCTGGTAATCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCtg                                                                                                                  >  2:315178/1‑123 (MQ=255)
                                                  ttCCTGGTAATCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAg                                                                             <  2:8428/139‑1 (MQ=255)
                                                      tGGTAATCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGa                                                                         >  2:675189/1‑139 (MQ=255)
                                                            tCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGa                                                                   <  1:231840/139‑1 (MQ=255)
                                                                       tCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGAc                                                                                          >  1:93294/1‑105 (MQ=255)
                                                                       tCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGAc                                                                                          <  2:93294/105‑1 (MQ=255)
                                                                          gCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACcaca                                                     <  1:675189/139‑1 (MQ=255)
                                                                                         cGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCAATCGTTc                                      >  2:164181/1‑139 (MQ=255)
                                                                                                                 cGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCa                                             >  1:420181/1‑108 (MQ=255)
                                                                                                                 cGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCa                                             <  2:420181/108‑1 (MQ=255)
                                                                                                                 cGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCAATCGTTCGCAGCCACCGCTCAACAAAACTTg              >  1:458984/1‑139 (MQ=255)
                                                                                                                 cGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCAATCGTTCGCAGCCACCGCTCAACAAAACTTg              >  2:49663/1‑139 (MQ=255)
                                                                                                                 cGCCACTAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCAATCGTTCGCAGCCACCGCTCAACAAAACTTg              >  2:694968/1‑139 (MQ=255)
                                                                                                                       tAATGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCAATCGTTCGCAGCCACCGCTCAACAAAACTTGTTCAGa        >  1:359561/1‑139 (MQ=255)
                                                                                                                        aaTGCCAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCAATCGTTCGCAGCCACCGCTCAACAAAACTTGTTCAGaa       <  2:458984/139‑1 (MQ=255)
                                                                                                                             cAACGACATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCGGACGCGCCATGAGTGGCAGATTACGACTACCTCCACCACATACCATCAATCGTTCGCATCCACTACTCATCCAATCTTGTTCATAAATGGt  <  1:415997/139‑1 (MQ=255)
                                                                                                                                  |                                                                                                                                     
AATAGCCCCCAGTACCGTCTCCTGGCTTGCGCCAGTGACGGAAGGCAGATTTCCTGGTAATCCCGCCAGCGTCCGCCAGGCAAGCCAGGCGAAAGCCAATGCTTCCATGTCATCGCCACTAATGCCAACGGCATCGGTGGTGGTGACTTCTGTGCCTGGCAGTAATGCCGCCAGACGCGCCATGAGTAGCGGATTACGACTACCTCCACCACATACCATCAATCGTTCGCAGCCACCGCTCAACAAAACTTGTTCAGAAATGGT  >  NC_000913/1718511‑1718774

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A