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
A13 F1 I1 R1 778 68.7 3228504 93.4% 3015422 109.7

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,595,227 T→C Q211Q (CAA→CAG)  tmcA ← elongator methionine tRNA (ac4C34) acetyltransferase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,595,2270TC97.7% 149.0 / ‑4.5 44Q211Q (CAA→CAG) tmcAelongator methionine tRNA (ac4C34) acetyltransferase
Reads supporting (aligned to +/- strand):  ref base T (0/1);  new base C (25/18);  total (25/19)
Fisher's exact test for biased strand distribution p-value = 4.32e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.37e-01

CTCATCGCTGGCTAACAAGGCATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGTTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTCGCGGGGTACCAGT  >  NC_000913/2595098‑2595357
                                                                                                                                 |                                                                                                                                  
cTCATCGCTGGCTAACAAGGCATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGctgccctgcc                                                                                                                           <  2:1567888/139‑1 (MQ=255)
  cATCGCTGGCTAACAAGGCATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCaa                                                                                                                         <  2:1280692/139‑1 (MQ=255)
             aaCAAGGCATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTAc                                                                                                              >  1:25047/1‑139 (MQ=255)
               cAAGGCATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGa                                                                                                                   <  2:1178134/132‑1 (MQ=255)
               cAAGGCATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGa                                                                                                                   >  1:1178134/1‑132 (MQ=255)
                  ggCATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCgcgc                                                                                                         >  1:367717/1‑139 (MQ=255)
                    cATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGccc                                                                                                       >  2:914158/1‑139 (MQ=255)
                    cATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGccc                                                                                                       >  2:1322522/1‑139 (MQ=255)
                    cATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGccc                                                                                                       >  2:1413312/1‑139 (MQ=255)
                    cATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGccc                                                                                                       >  2:240056/1‑139 (MQ=255)
                    cATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGccc                                                                                                       >  2:423907/1‑139 (MQ=255)
                      tCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGctgccctgcc                                                                                                                           >  1:1571676/1‑117 (MQ=255)
                      tCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGctgccctgcc                                                                                                                           <  2:1571676/117‑1 (MQ=255)
                          gcgcAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACgcgc                                                                                                 >  1:1452525/1‑139 (MQ=255)
                                               cGCCCGCAAATTGTGCCAGTACATCTGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGcc                                                                            <  2:1211314/139‑1 (MQ=255)
                                                gCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGTTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGccc                                                                           <  2:1161505/139‑1 (MQ=255)
                                                       aaTTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCa                                                                    <  2:1452525/139‑1 (MQ=255)
                                                                  tACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAgc                                                         >  2:553480/1‑139 (MQ=255)
                                                                  tACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAgc                                                         <  2:72244/139‑1 (MQ=255)
                                                                  tACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATAGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAgc                                                         <  2:1011959/139‑1 (MQ=255)
                                                                    cATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACcgcg                                                                                                          >  1:849240/1‑88 (MQ=255)
                                                                    cATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACcgcg                                                                                                          <  2:849240/88‑1 (MQ=255)
                                                                      tCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAgctgct                                                     >  2:291229/1‑139 (MQ=255)
                                                                      tCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAgctgct                                                     >  1:103920/1‑139 (MQ=255)
                                                                          ttGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAgc                                                         <  2:159809/131‑1 (MQ=255)
                                                                          ttGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAgc                                                         >  1:159809/1‑131 (MQ=255)
                                                                            gACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGcc                                                                            <  2:1197978/110‑1 (MQ=255)
                                                                            gACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGcc                                                                            >  1:1197978/1‑110 (MQ=255)
                                                                            gACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCa                                                                    >  1:879185/1‑118 (MQ=255)
                                                                            gACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCa                                                                    <  2:879185/118‑1 (MQ=255)
                                                                              cGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGt                                             >  2:144771/1‑139 (MQ=255)
                                                                              cGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGt                                             >  1:602790/1‑139 (MQ=255)
                                                                                   ttGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCtg                                        <  1:1413312/139‑1 (MQ=255)
                                                                                                gACAATCGCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTtgt                           <  1:144771/139‑1 (MQ=255)
                                                                                                       gCTCTGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTgcgc                    >  2:652546/1‑139 (MQ=255)
                                                                                                         tctGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCa                  >  2:1429148/1‑139 (MQ=255)
                                                                                                           tGCCCGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGt                >  1:948601/1‑139 (MQ=255)
                                                                                                               cGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTcgcg            >  2:1369918/1‑139 (MQ=255)
                                                                                                               cGCAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTcgcg            <  1:423907/139‑1 (MQ=255)
                                                                                                                 cAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCa                                                                    <  1:1001604/81‑1 (MQ=255)
                                                                                                                 cAATACGAGAAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCa                                                                    >  2:1001604/1‑81 (MQ=255)
                                                                                                                       gagaAATGAGCTGCCCTGCTAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTCGCGGGGTACca    >  1:172625/1‑139 (MQ=255)
                                                                                                                       gagaAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTCGCGGGGTACca    <  2:948601/139‑1 (MQ=255)
                                                                                                                       gagaAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTCGCGGGGTACca    <  1:291229/139‑1 (MQ=255)
                                                                                                                         gaAATGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTCGCGGGGTACcagt  <  1:652546/139‑1 (MQ=255)
                                                                                                                            aTGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTCGCGGGGTAc      <  1:1490094/132‑1 (MQ=255)
                                                                                                                            aTGAGCTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTCGCGGGGTAc      >  2:1490094/1‑132 (MQ=255)
                                                                                                                                 |                                                                                                                                  
CTCATCGCTGGCTAACAAGGCATCCGGCGCAATAAAGCGAAACTTCTCGCCCGCAAATTGTGCCAGTACATCCGTTGACGCTTTTGCGGGCGCGGTGACAATCGCTCTGCCCGCAATACGAGAAATGAGTTGCCCTGCCAACGCCGACTTACCGCGCCCACGCGCAGCCGTTACCGCTGCCACGCCCGGCGGCATGGTCATTAGCTGCTTTAAGAGTTGCTGTTGTTCTGGTTGTGGTGCGCCAGTCGCGGGGTACCAGT  >  NC_000913/2595098‑2595357

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A