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
A19 F50 I0 R1 80 46.5 1794022 91.0% 1632560 142.6

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 962,670 A→G 22.7% K226E (AAA→GAA)  rpsA → 30S ribosomal subunit protein S1

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913962,6700AG22.7% 87.1 / 23.4 57K226E (AAA→GAA) rpsA30S ribosomal subunit protein S1
Reads supporting (aligned to +/- strand):  ref base A (21/23);  new base G (7/6);  total (28/29)
Fisher's exact test for biased strand distribution p-value = 7.60e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.42e-01

AGAGCGCGATCAGCTGCTGGAAAACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGATCCGTGGGTAGCTATCGCTAA  >  NC_000913/962534‑962809
                                                                                                                                        |                                                                                                                                           
agagCGCGATCAGCTGCTGGAAAACCTGCAGGAAGGCGTGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAAcgcg                                                                                                                                       <  2:537724/143‑1 (MQ=255)
 gggcgcGATCAGCTGGTCGAAAACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGt                                                                                                                                      <  2:829524/141‑1 (MQ=255)
 gagCGCGGTCACTTGCTGGAATACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGCCTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGt                                                                                                                                      <  2:32163/143‑1 (MQ=255)
  agCGCGATCAGCTGCTGGAAAACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGtt                                                                                                                                     >  1:70542/1‑143 (MQ=255)
        aTCAGCTGCTGGAAAACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGGTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGGAACGCGTTAAGCAt                                                                                                                               >  1:460844/1‑143 (MQ=255)
           aGCTGCTGGAAAACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTGGGTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACGGACATGGCATGGACACGCGTTACGCATCCg                                                                                                                            >  1:394842/1‑143 (MQ=255)
           aGCTGCTGGAAAACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCg                                                                                                                            >  2:517293/1‑143 (MQ=255)
              tgctgGAAAACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGGAACGCGTTCAGCATCGGAGc                                                                                                                         >  2:342090/1‑143 (MQ=255)
                    aaaaCCTGCAGGAAGGCATGGAAGTTAACGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGAGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGCTAAGCATCCGAGCGAAATc                                                                                                                   >  2:99159/1‑143 (MQ=255)
                     aaaCCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCg                                                                                                                  >  2:645624/1‑143 (MQ=255)
                      aaCCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAGCCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGt                                                                                                                 <  2:408284/143‑1 (MQ=255)
                              ggAAGTCAGGGAAGTTAAACGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTgg                                                                                                         <  2:738472/143‑1 (MQ=255)
                              ggAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTgg                                                                                                         <  1:765622/143‑1 (MQ=255)
                                  gggaTGCAAGTTAAAGGTATCGGTAAGAACCGCACTGACTACGGTTCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGcga                                                                                                     <  2:359151/140‑1 (MQ=255)
                                   gCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGcgac                                                                                                    >  1:460053/1‑143 (MQ=255)
                                     aTGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGcgacga                                                                                                  >  1:657825/1‑143 (MQ=255)
                                     aTGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGAATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGTGAACTGGTCAAGTTGGGcgtcgg                                                                                                  >  1:469536/1‑142 (MQ=255)
                                          aGTTAAAGGTATCGTTAAGAACCTCACTGGCTACGGTGCATTCGTTGAGCTGGGCGGCGTTGACGGCCTGCGGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCa                                                                                             <  2:567026/143‑1 (MQ=255)
                                            gtAAAGGTATCGGTAAGAACCTCACTGACGACGGGGCATTCGTCGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAACCGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACt                                                                                           <  1:225039/142‑1 (MQ=255)
                                                      cGTTAAGAACCTCACTGACTACCGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGCCATCGCCTGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGc                                                                                 <  1:15814/143‑1 (MQ=255)
                                                          aaGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGaa                                                                             >  1:482920/1‑143 (MQ=255)
                                                               ccTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCg                                                                        >  1:762659/1‑143 (MQ=255)
                                                               ccTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCg                                                                        <  1:439154/143‑1 (MQ=255)
                                                                ctctctGACTCCGGTGCATTCGTTGATCTGGGCGGCGGGGACGGGCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGa                                                                       <  2:553495/143‑1 (MQ=255)
                                                                ctcaaggACTACGGTGCATTCGTTGGTCGGGGCGGCGTTGACGGACTGCTGCACATCACTGACATGACCTGGGGACGCGTTAAGCACCCGGGCGAAATCGTCAACGTGGGCTGCTAACTCACTGTTAAAGTGCTGACGTGCGa                                                                       >  2:879613/7‑143 (MQ=255)
                                                                cTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCTTTTACGGCCTGCTGCACATCTCTGATATTGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGa                                                                       <  1:155961/143‑1 (MQ=255)
                                                                         tACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGGAACGCGGTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTCAAAGTGCGGAAGTTCGACCGCGAACg                                                              >  2:727561/1‑143 (MQ=255)
                                                                            ggTGCAGTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTAc                                                           <  1:831993/143‑1 (MQ=255)
                                                                              tGCATTCGTTGGTCTGGCCGGCGTCGACGGCCTTCTGCACATCACTGACATGGCCTGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGCCGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTAccc                                                         <  1:702543/143‑1 (MQ=255)
                                                                                aactCGTTGATCTGGGCGGCGTGGGCGGCCTGCTGCACATCACTGACTTGGCCTGGAAACGCGTTAAGTATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCgt                                                       <  1:119164/140‑1 (MQ=255)
                                                                                 aTTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTAGCCgtg                                                      >  1:281585/1‑143 (MQ=255)
                                                                                    cGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTAt                                                   <  1:21876/143‑1 (MQ=255)
                                                                                     gTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACAGACATGGCCTGGAAACGCGTTAAGCATACGAGCGAAATCGACAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACGCGTGtctc                                                  >  2:334582/1‑143 (MQ=255)
                                                                                        gATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCt                                               <  1:517293/143‑1 (MQ=255)
                                                                                         aTCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGCGTATCCCTg                                              >  2:594324/1‑143 (MQ=255)
                                                                                         aTCTGGGCGGCGTTGACGGCCTGCTGCACATCACTAACATGGCCTGGAAACGCGTTAAGCATCCGATCGACATCATCAACGTGGGCGGCGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTg                                              <  2:587540/143‑1 (MQ=255)
                                                                                                cggcgTTGGCGGCCTGCAGCACATCACTGACATGGCCTGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGa                                       <  2:517418/143‑1 (MQ=255)
                                                                                                  gcgTGGGCGGACGGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGaaa                                     <  1:225042/143‑1 (MQ=255)
                                                                                                     ttGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTCTCCCTGGGCCTGAAAccg                                  >  2:476935/1‑141 (MQ=255)
                                                                                                       gACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCt                                <  2:482920/143‑1 (MQ=255)
                                                                                                        aCGGCCTGCTGCACATCACTGACATGGCCTGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTg                               <  1:699333/143‑1 (MQ=255)
                                                                                                          ggCCTGCTTCACATCTCTGACATGGCCCGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTggg                             <  2:820652/143‑1 (MQ=255)
                                                                                                          ggCCTGCTGCACATCACTGACATGGCCTGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTggg                             >  1:765524/1‑143 (MQ=255)
                                                                                                           cccTGCTGCACATCACTCACATGCCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGc                            <  2:819482/142‑1 (MQ=255)
                                                                                                             ctgctgCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGCGCGa                          >  2:252669/1‑143 (MQ=255)
                                                                                                              tgctgcACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGaa                         <  1:494164/143‑1 (MQ=255)
                                                                                                                ctgcACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGCGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGa                       >  1:277598/1‑143 (MQ=255)
                                                                                                                ctgcACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGa                       >  1:278676/1‑143 (MQ=255)
                                                                                                                   cttaTCCCTGATTTGGCCTGGAAACGCGTTAAGCATCCGAGCGAAAGCGGCAACGGGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGATcc                    <  1:13414/140‑1 (MQ=255)
                                                                                                                     caTCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGATCCGt                  <  1:696197/143‑1 (MQ=255)
                                                                                                                       ccccTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAGATCGGCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGATCCGTgg                <  2:74725/140‑1 (MQ=255)
                                                                                                                                 ggCCTGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGATCCGTGGGTAGCTAGCg      >  2:201753/1‑143 (MQ=255)
                                                                                                                                  gCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGCGCCGTGGGTAGCTATCGc     >  2:572962/1‑143 (MQ=255)
                                                                                                                                  gCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTCAAACAGCTGGGCGAAGATCCGTGGGTAGCTATCGc     >  2:382088/1‑143 (MQ=255)
                                                                                                                                    cTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGATCCGTGGGTAGCTATCGCTa   >  1:862349/1‑143 (MQ=255)
                                                                                                                                     tGGGAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGCAGTTCGACCGCGAACGTACCCGTGTATCAATGGGCCTGAAACAGCTGGGCGAAGATCCGAGGGTAGCTATCGCTaa  >  2:135379/1‑143 (MQ=255)
                                                                                                                                     tGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACGGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTAGCCCTGGGCCTGAAAGAGCTGGGCGAGGAGCCGTGGGTAGCGATCGCtcc  >  1:274051/1‑141 (MQ=255)
                                                                                                                                        |                                                                                                                                           
AGAGCGCGATCAGCTGCTGGAAAACCTGCAGGAAGGCATGGAAGTTAAAGGTATCGTTAAGAACCTCACTGACTACGGTGCATTCGTTGATCTGGGCGGCGTTGACGGCCTGCTGCACATCACTGACATGGCCTGGAAACGCGTTAAGCATCCGAGCGAAATCGTCAACGTGGGCGACGAAATCACTGTTAAAGTGCTGAAGTTCGACCGCGAACGTACCCGTGTATCCCTGGGCCTGAAACAGCTGGGCGAAGATCCGTGGGTAGCTATCGCTAA  >  NC_000913/962534‑962809

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A