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 F32 I40 R1 13 46.7 1511635 98.1% 1482913 146.1

Breseq alignment

BRESEQ :: Evidence
Predicted mutation
evidence seq id position mutation annotation gene description
RA CP009273 2,719,426 T→C intergenic (‑321/+2) kgtP ← / ← rrfG alpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092732,719,4260TC96.2% 148.3 / ‑5.3 52intergenic (‑321/+2)kgtP/rrfGalpha‑ketoglutarate transporter/5S ribosomal RNA of rrnG operon
Reads supporting (aligned to +/- strand):  ref base T (0/0);  major base C (27/23);  minor base A (2/0);  total (29/23)
Fisher's exact test for biased strand distribution p-value = 4.97e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.46e-01

ACGTATGGAAGTGGGCAAGTTGGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTATCA  >  CP009273/2719280‑2719562
                                                                                                                                                  |                                                                                                                                        
acGTATGGAAGTGGGCAAGTTCGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTACTGTTTGAATTCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGa                                                                                                                                        <  1:746412/149‑1 (MQ=37)
  gTATGGAAGTGGGCAAGTTGGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATg                                                                                                                                      >  1:75564/1‑149 (MQ=255)
  gTATGGAAGTGGGCAAGTTGGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATg                                                                                                                                      >  1:397710/1‑149 (MQ=255)
     tGGAAGTGGGCAAGTTGGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCt                                                                                                                                   <  1:557797/149‑1 (MQ=255)
        aaGTGGGCAAGTTGGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCGATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGc                                                                                                                                >  1:95066/1‑149 (MQ=255)
              gCAAGTTGGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTcc                                                                                                                          >  1:84163/1‑149 (MQ=255)
                aaGTTGGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGAAg                                                                                                                              <  2:295037/143‑1 (MQ=255)
                       ggAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTa                                                                                                                       >  2:630969/1‑143 (MQ=255)
                       ggAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATAAGGCATTTTTTTCTGCGCCAATGCAGAAAGGCCAGCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTTCCTACTCTCg                                                                                                                 >  1:602749/1‑149 (MQ=25)
                            ccGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATgg                                                                                                            <  1:129372/149‑1 (MQ=255)
                             cGTATCCGCTGCTGCATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAATAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATggg                                                                                                           <  1:689796/149‑1 (MQ=255)
                                  ccGTTGCTGAACCTGGCATATGTGGGAGTATAAGACGCGCAGTGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGAc                                                                                                      <  1:730629/149‑1 (MQ=255)
                                    gTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGAccc                                                                                                    >  1:619688/1‑149 (MQ=255)
                                    gTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATACAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGTATGGGGAGAccc                                                                                                    >  1:86000/1‑149 (MQ=255)
                                       gCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGgaga                                                                                                       >  2:587485/1‑143 (MQ=255)
                                           aaTCTGGCATATGTGGGAGTATACGACGCGCAGCGTCGCATCAGGCATTTTTTCCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCACGGGGAGACCCCACCCTa                                                                                             >  1:434797/1‑149 (MQ=25)
                                           aaTCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGAcccc                                                                                                   <  2:217281/143‑1 (MQ=255)
                                                  cATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGTCCATCCGTCAGGATGGCCTTTCGCATAATTAGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCCCACTAc                                                                                            >  2:385604/1‑143 (MQ=255)
                                                   atatGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCACGCATGGGCAGACCCCACACAAcc                                                                                           >  2:231603/1‑143 (MQ=255)
                                                          ggAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGgcg                                                                                    <  2:88873/143‑1 (MQ=255)
                                                            aGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGATCCCACACTACCATCGGCGCTACGGCg                                                                            >  1:733996/1‑149 (MQ=255)
                                                              tataAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGtt                                                                          <  1:626648/149‑1 (MQ=255)
                                                                    aCGCGCAGCGTCGCATCAGGCATTTTTGTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACtt                                                                    <  1:162397/149‑1 (MQ=255)
                                                                     cgcgCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCTATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGATCCCACACTACCATCGGCGCTACGGCGttt                                                                         <  2:84111/143‑1 (MQ=255)
                                                                      gcgcAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAACAGGCCATCCGTAAGGCTAGCATGTGGCATAATCATTAACCGGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCt                                                                  >  1:382809/1‑149 (MQ=18)
                                                                       cccAGCGGCGCATCAGGCATCTGTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCa                                                                       <  2:162345/141‑1 (MQ=255)
                                                                            cGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCt                                                                  <  2:66625/143‑1 (MQ=255)
                                                                            cGTCGCATCAGGCATTTTTTTCTGAGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCGTGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTGACTTCTGAGTTc                                                            >  1:587699/1‑149 (MQ=255)
                                                                              tCGCATCAGGCATGTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTCCCCTCCTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGa                                                                <  2:288664/143‑1 (MQ=255)
                                                                                        cATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCATTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATg                                                      <  2:385368/143‑1 (MQ=255)
                                                                                         aTTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGCGTTCGGCATGGGGACAg                                               >  1:7043/1‑149 (MQ=255)
                                                                                          tttttttCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAGTTCGATGCCTGGCCGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCggg                                              >  1:36932/1‑149 (MQ=255)
                                                                                          ttttatacagcgcCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGAAGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCCCTCCGGCGTTTCACTTCTGAGTCCGCCATggg                                                    >  2:222358/10‑143 (MQ=18)
                                                                                            tttttCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTg                                            <  1:653361/149‑1 (MQ=255)
                                                                                                tCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGac                                        >  1:616134/1‑149 (MQ=255)
                                                                                                   ggcccAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTgg                                           <  2:540203/140‑1 (MQ=255)
                                                                                                    cgcCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGCTGCCTGGCCGTTCCCTACTCTCGCCTGGGGAGACCCCCCCCTACCATCGGCGCTACGGCGTTTCCCTTCTCGCTCCGGCCTGGGGTCACGTggg                                          >  2:36250/1‑143 (MQ=18)
                                                                                                    cgcCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGACTTCGGCATGGGGTCGGGTGGGaccacc                                    >  1:551330/1‑149 (MQ=255)
                                                                                                     gcCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACCTCTGAGTTCGGCATGGGGTCCggggcgg                                         >  2:343485/1‑138 (MQ=18)
                                                                                                         aTGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCt                               <  1:713154/149‑1 (MQ=255)
                                                                                                             aaaaaGGCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACcgcg                                 >  2:396770/1‑143 (MQ=255)
                                                                                                                  ggCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGgccgcc                      <  1:700218/149‑1 (MQ=255)
                                                                                                                   gCCATCCGTCAGGATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACgg                           >  2:185625/1‑143 (MQ=255)
                                                                                                                           gacggATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAgg                   >  2:207584/4‑143 (MQ=255)
                                                                                                                               gATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCCGGTGGGACCACCGCGCTACGGCCGCCAGGCaaa               <  2:44418/143‑1 (MQ=255)
                                                                                                                               gATGGCCTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCTGGCCAATGCTGt         >  1:401386/1‑149 (MQ=255)
                                                                                                                                   gCCTTGCGCATAATTCGATGCCTGGCAGTTCCGTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTa     <  1:261771/149‑1 (MQ=255)
                                                                                                                                    ccTTTCGCATAATTCGCTGCCTGGCAGTTCCCTACTGTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTg          <  2:76141/143‑1 (MQ=255)
                                                                                                                                     cTTTCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGt         >  2:263224/1‑143 (MQ=25)
                                                                                                                                      tttCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTATCa  <  1:437622/149‑1 (MQ=25)
                                                                                                                                       ttCGCATAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTGCGGCCTGGGGTCAGGTGGGGCCACCGCGCTACGGCCGCCAGGCAGATTCTGctt       >  2:144111/1‑143 (MQ=11)
                                                                                                                                            aTAATTCGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATGCTGTTTTATcc  >  2:277796/1‑142 (MQ=11)
                                                                                                                                                  |                                                                                                                                        
ACGTATGGAAGTGGGCAAGTTGGGGAAGCCGTATCCGTTGCTGAATCTGGCATATGTGGGAGTATAAGACGCGCAGCGTCGCATCAGGCATTTTTTTCTGCGCCAATGCAAAAAGGCCATCCGTCAGGATGGCCTTTCGCATAATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGACCACCGCGCTACGGCCGCCAGGCAAATTCTGTTTTATCA  >  CP009273/2719280‑2719562

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑

GATK/CNVnator alignment

N/A