Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,527,589 C→T Q375* (CAG→TAG)  yrfF → putative RcsCDB‑response attenuator, inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,527,5890CT94.6% 104.5 / NA 37Q375* (CAG→TAG) yrfFputative RcsCDB‑response attenuator, inner membrane protein
Reads supporting (aligned to +/- strand):  ref base C (2/0);  new base T (20/15);  total (22/15)
Fisher's exact test for biased strand distribution p-value = 5.05e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGAACTTCCGGAACCT‑‑GGAGCGCGAAAACCAATTCACCTTTTTTA  >  NC_000913/3527450‑3527729
                                                                                                                                           |                                                                                                                                              
aGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGa                                                                                                                                             <  1:482773/143‑1 (MQ=255)
    aaaaaCTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTGTATGCTATTATTCTGGATCCCGCTGGATATGCCGCTGGAATTCACTCTCTCATGGATCAAAGGCGCGCAGACAAt                                                                                                                                         >  2:716977/1‑143 (MQ=255)
     gcatcttgcggTTACAGCACTGGCTGCGCCGTACGATTCTCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATGCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCAtt                                                                                                                                        <  2:403169/133‑1 (MQ=255)
        aCTTTCCGTTACAGCACTGGCTGCGCAGTACGAGTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGaa                                                                                                                                     <  1:734171/143‑1 (MQ=255)
               gTTACAGCACTGGCTGCGCATTACGATTATCGCAAAGGGCTCGCTGCTGGTGCAGATTATGCTGTTATACTGGATCCCGATGGATATACCGCAAAAATGAACTCTCTCATGGATGAAAGGCGCGTAGACAATTCAAGccacca                                                                                                                              >  2:400718/1‑143 (MQ=255)
               gTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGccacca                                                                                                                              <  1:164966/143‑1 (MQ=255)
               gTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGccacca                                                                                                                              <  1:324773/143‑1 (MQ=255)
                 tACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTCTGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTAATGGATGAAAGGCGCGTAGAGCATTGCAGCCACCAGc                                                                                                                            >  1:494968/1‑143 (MQ=255)
                       tcTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTaaaa                                                                                                                      <  1:366110/142‑1 (MQ=255)
                                gcAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCt                                                                                                             >  1:692905/1‑143 (MQ=255)
                                   gTACGGTTATCGCTGCGGGATCGCTGCTGGTGCTGTTTGTGCTGTTATGCTGGATCCCGCTGGATATGCCGCTGAAACTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAACACAACTGGCTGAc                                                                                                          <  1:102277/143‑1 (MQ=255)
                                       gATTATCGCTGCGGGCTCGCTGCAGGTGCAAATTAAGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGGAAGGCGCGTAGACCATTGAAGCCAACAGCGTAAAACAACTGGCTGACGcag                                                                                                      >  2:238300/1‑141 (MQ=255)
                                                       tCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGa                                                                                      <  1:309482/143‑1 (MQ=255)
                                                         gctgctGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGGAGGCGATa                                                                                    >  1:148006/1‑143 (MQ=255)
                                                             cttgTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATAGGCCGCTGAAATTCACTCTCTCATGGAGGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACAtt                                                                                <  1:207455/140‑1 (MQ=255)
                                                                  gCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGGTACATTGCGTa                                                                           >  2:451145/1‑143 (MQ=255)
                                                                     gtctATGCGGTGATTCTGGATCCCGCTGGATATGCCGCGGAAATACACTCTCTCATGGATGAAAGGCGCGTAGACCATTGACGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGGAGGCGATACATTGCGTATTa                                                                        <  2:418792/140‑1 (MQ=255)
                                                                     gTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAGCAACCGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTa                                                                        >  1:761404/1‑143 (MQ=255)
                                                                          tGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGt                                                                   >  2:81308/1‑143 (MQ=255)
                                                                           gCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATCCATTGCGTACTAGCGGtc                                                                  >  1:743044/1‑142 (MQ=255)
                                                                           gCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGCATTAGCGGTa                                                                  >  1:781132/1‑143 (MQ=255)
                                                                             tGTTACTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACg                                                                <  1:213969/143‑1 (MQ=255)
                                                                              gTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACgg                                                               >  2:16927/1‑143 (MQ=255)
                                                                                     tgcaTCCCGCTGGAGAGGCCGCGGAAATTCACTCGCTCATGGATGAAAGGCGCGTAGGCCATTGACGCCCCCAGCGTAAAACATCTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAAtgtg                                                        <  1:505279/140‑1 (MQ=255)
                                                                                     tGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAGtgtg                                                        >  1:729320/1‑143 (MQ=255)
                                                                                       gATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGAGTa                                                      >  2:122235/1‑143 (MQ=255)
                                                                                         tCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCAACCGCGTACAACAACTTGCTGACGCTGGCGTGCGTGTAGGCGATACATTGCGTATTAGCGGTACTGGTATGTGTAat                                                    >  2:653419/1‑143 (MQ=255)
                                                                                                          cTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTCGCGGTACGGGAATGGGTAATATTCGAACTTCCGGAAc                                   >  2:362908/1‑143 (MQ=255)
                                                                                                          cTGAAATTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGAACTTCCGGAAc                                   <  1:487973/143‑1 (MQ=255)
                                                                                                             aaaTTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGAACTTCCGGAACCT‑‑g                              >  1:771077/1‑143 (MQ=255)
                                                                                                               aTTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGaa                                             <  2:160601/128‑1 (MQ=255)
                                                                                                               aTTCACTCTCTCATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGaa                                             >  1:160601/1‑128 (MQ=255)
                                                                                                                         tcATGGCTGAAAGGCGCGTAGACCATTGAAGCCACTAGCGTAAAACAACTGGCTGACGATGGCGTGCGGGTAGGCGATACATTTCGTATTAGGGGTAAGGGAATGTGTACCATTCGTACTTCTGTAACCTAGGGAGCGAGaaa                    >  2:602446/1‑143 (MQ=255)
                                                                                                                         tcATGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGAACTTCCGGAACCT‑‑GAAGCGCGaatga                  >  1:211305/1‑140 (MQ=255)
                                                                                                                           aTGGATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGAACTTCCGGAACCT‑‑GGAGCGCGAAAACCa                >  1:251000/1‑143 (MQ=255)
                                                                                                                             ggATGAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGCATGTGTAATATTCGAACTTCAGCAACCT‑‑GGACCGCGAAACCAAAt              >  2:675835/1‑143 (MQ=255)
                                                                                                                                 gAAAGGCGCGTAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGAACTTCCGGAACCT‑‑GGAGCGCGAAAACCAATTCAc          <  1:735384/143‑1 (MQ=255)
                                                                                                                                         cgcAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACACTGCGTATTAGCGGTACGGGAATGTGTAATATTCGAACTTCCGGACCCT‑‑GGAGCGCGAAAACCAATTCACCTTTTTTa  <  1:249092/143‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                              
AGTAAAAAACTTTCCGTTACAGCACTGGCTGCGCAGTACGATTATCGCTGCGGGCTCGCTGCTGGTGCTGTTTATGCTGTTATTCTGGATCCCGCTGGATATGCCGCTGAAATTCACTCTCTCATGGATGAAAGGCGCGCAGACCATTGAAGCCACCAGCGTAAAACAACTGGCTGACGCTGGCGTGCGGGTAGGCGATACATTGCGTATTAGCGGTACGGGAATGTGTAATATTCGAACTTCCGGAACCT‑‑GGAGCGCGAAAACCAATTCACCTTTTTTA  >  NC_000913/3527450‑3527729

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: