Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 1,718,515 T→C 7.5% F232L (TTC→CTC)  U712_08825 → putative HTH‑type transcriptional regulator ymfC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068811,718,5150TC 7.5% 143.0 / 3.0 53F232L (TTC→CTC) U712_08825putative HTH‑type transcriptional regulator ymfC
Reads supporting (aligned to +/- strand):  ref base T (21/28);  new base C (2/2);  total (23/30)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CCGATCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCAATATATAAGGGATGAC  >  CP006881/1718377‑1718644
                                                                                                                                          |                                                                                                                                 
ccGATCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAAt                                                                                                                                   >  7:10638/1‑139 (MQ=255)
  gATCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAAtt                                                                                                                                  >  5:93190/1‑138 (MQ=255)
   aTCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAACCCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAAtt                                                                                                                                  >  1:206951/1‑137 (MQ=255)
   aTCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAAtt                                                                                                                                  >  5:191230/1‑137 (MQ=255)
   aTCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAAtt                                                                                                                                  >  6:101480/1‑137 (MQ=255)
   aTCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAAtt                                                                                                                                  >  7:230254/1‑137 (MQ=255)
   aTCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGAGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCa                                                                                                                                >  3:323749/1‑139 (MQ=255)
              cGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGtt                                                                                                                     <  2:244606/139‑1 (MQ=255)
                  aCCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGc                                                                                                                 >  1:339174/1‑139 (MQ=255)
                  aCCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGc                                                                                                                 >  6:216569/1‑139 (MQ=255)
                       ttCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCTTGTTTTGCGTaaa                                                                                                            >  5:318996/1‑139 (MQ=255)
                       ttCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTaaa                                                                                                            >  1:241471/1‑139 (MQ=255)
                        tctcCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTaaa                                                                                                            <  7:136987/138‑1 (MQ=255)
                              gTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTc                                                                                                      >  1:203569/1‑138 (MQ=255)
                                      aTGCGACCCGGAACCAGCTCTTTTGCTGTTAAAACAAACCCATACCGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATACAGATTTCATGTTTTGCGTAAACGATTATAAAAACgg                                                                                             <  7:88577/139‑1 (MQ=255)
                                                    cAGCTCTTTTGCTTTTAAAACAAACCCATTACGATCAGCACGATAACCCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATgtgt                                                                               <  5:286936/139‑1 (MQ=255)
                                                                 gTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTAtt                                                                  >  8:80227/1‑139 (MQ=255)
                                                                     aaacaaacCCATTACCATCAGCACTATAAACCGGTGCTTTATTTTTTAAATTTTTTTAGAGCGAATAAATTCTGATTTCATGTTTTGATTAAACGATGATAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCa                                                              <  3:59259/139‑1 (MQ=255)
                                                                        aaaacCCATAACGATCAGCACTATAAACCGGTGATTTATTCTTTAAATTATTTTAGTGCGTATAAATTCATATTTCATGTTTTGCTTAAACTATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTg                                                           <  2:203569/138‑1 (MQ=255)
                                                                                ttACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGt                                                   >  2:219139/1‑139 (MQ=255)
                                                                                      tCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCttt                                             >  1:130606/1‑139 (MQ=255)
                                                                                      tCAGCACGATAAACCGGTGATTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGAAAACTATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCttt                                             <  6:191230/139‑1 (MQ=255)
                                                                                        aGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTg                                            >  5:113976/1‑138 (MQ=255)
                                                                                          cACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTa                                          >  1:324077/1‑138 (MQ=255)
                                                                                           aCGATAACCGGGGGGTTTATTATTTAAATTATTTTAGACCGTATAAATTCAGATTCCATGTTTTGCGTAACCGATTCTAAAACCGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACa                                        <  5:101480/139‑1 (MQ=255)
                                                                                               tAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACt                                    >  5:214683/1‑139 (MQ=255)
                                                                                                aaaCCGGTTTTTTATTATTAAAATTATTTTAGAGCGTATATATTCATATTTCTTTTTTTGCGAACACGATTCAAAACACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACtt                                   <  2:339174/139‑1 (MQ=255)
                                                                                                  aCCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACttt                                  >  7:61095/1‑138 (MQ=255)
                                                                                                     ggTGCTTTATTCTTTAAATTATTTTCGAGCGTATAAATTCAGATTTCATGTTTTGCGAAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCAtt                              <  7:343023/139‑1 (MQ=255)
                                                                                                       tGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGc                                                                                         <  2:280913/78‑1 (MQ=255)
                                                                                                       tGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGc                                                                                         >  1:280913/1‑78 (MQ=255)
                                                                                                       tGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTcc                            >  5:151191/1‑139 (MQ=255)
                                                                                                       tGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTcc                            >  3:228267/1‑139 (MQ=255)
                                                                                                       tGCTTTATTCTTTAAATTATTTTAGAGCGGATAAACTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACa                                        >  8:263813/1‑127 (MQ=255)
                                                                                                       tGCTTTATTCTTTAAATTATTTTAGAGCGGATAAACTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACa                                        <  7:268589/127‑1 (MQ=255)
                                                                                                       tGCTTTATTCTTTAAATTATTTTAGAGCGGATAAACTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACa                                        <  7:263813/127‑1 (MQ=255)
                                                                                                       tGCTTTATTCTTTAAATTATTTTAGAGCGGATAAACTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACa                                        >  8:268589/1‑127 (MQ=255)
                                                                                                                cTTTAAATTATTTTATAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACg                    <  7:237277/138‑1 (MQ=255)
                                                                                                                cTTTAAATTATTTTAGAGGTGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACg                    <  5:130498/138‑1 (MQ=255)
                                                                                                                cTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACg                    <  8:230254/138‑1 (MQ=255)
                                                                                                                cTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACg                    <  2:130606/138‑1 (MQ=255)
                                                                                                                atttAAATTATTTTATAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACAATTCTAAAAACGCACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACg                    <  3:252242/137‑1 (MQ=255)
                                                                                                                 tttAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGc                   >  5:273544/1‑138 (MQ=255)
                                                                                                                 tttAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCa                  <  6:93190/139‑1 (MQ=255)
                                                                                                                 tttAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCa                  <  7:80227/139‑1 (MQ=255)
                                                                                                                 attAAATTATTTTAGAGCGGATAAATTAAGATTTAATTTTTTGCTAAACCGATTAAAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCa                  <  3:229892/138‑1 (MQ=255)
                                                                                                                  ttAAATTATTTACGTGCTAATAAATTCAGATTTAATGTTTTGCTTAATCGATTCTAACAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCa                  <  4:200221/138‑1 (MQ=255)
                                                                                                                  taaaaTTATTTTTGAGTGATTAATTTCATATAGCTTGTTTTGTTTAAAGTATACTAAAGACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCa                  <  5:216569/136‑1 (MQ=255)
                                                                                                                   taaattaaatTAGAGCGGATAAATTCAGCTTGCATGGTGTGCGAAACCGATGCTAAACACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGGTAACGCa                  <  4:162692/137‑1 (MQ=255)
                                                                                                                   tAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCAtt                              <  2:258492/125‑1 (MQ=255)
                                                                                                                   tAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCAtt                              >  1:258492/1‑125 (MQ=255)
                                                                                                                   tAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCAAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCa                  <  4:323749/137‑1 (MQ=255)
                                                                                                                              atctcGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAAAGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCAATATATAAGGGa      <  6:318996/134‑1 (MQ=255)
                                                                                                                              agagCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCAATATATAAGGGa      <  2:241471/138‑1 (MQ=255)
                                                                                                                                    gATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCAtt                              <  7:62609/108‑1 (MQ=255)
                                                                                                                                    gATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCAtt                              >  8:62609/1‑108 (MQ=255)
                                                                                                                                    gATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACg                    >  1:98717/1‑118 (MQ=255)
                                                                                                                                    gATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACg                    <  2:98717/118‑1 (MQ=255)
                                                                                                                                    gATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAAATCAATATATAAGGTATGAc  >  5:151418/1‑136 (MQ=255)
                                                                                                                                          |                                                                                                                                 
CCGATCGGCTATCACGATACCATTTCTCCAGTGCTTGAATGCGATCCGGAAACAGCTCTTTTGCTGTTAAAACAAACCCATTACGATCAGCACGATAAACCGGTGCTTTATTCTTTAAATTATTTTAGAGCGGATAAATTCAGATTTCATGTTTTGCGTAAACGATTCTAAAAACGGACGCCTGTATGTGTCTGTTTTTTTATTTGCACTGATTCATGTTTCTTTGTACATACTTTCATTCCGGTTAACGCAATATATAAGGGATGAC  >  CP006881/1718377‑1718644

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑