Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 4,546,084 G→T 41.8% H18Q (CAC→CAA)  yjiC ← uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092734,546,0840GT41.8% 3.9 / 25.4 24H18Q (CAC→CAA) yjiCuncharacterized protein
Reads supporting (aligned to +/- strand):  ref base G (8/6);  new base T (4/6);  total (12/12)
Fisher's exact test for biased strand distribution p-value = 6.80e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.62e-01

GTTTTCTAATTTCGACAACGCTTTTTCCATCGTAATTATGGTTATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTAAAAAGAGAAGTAAACAAATGACATGCATGTTT  >  CP009273/4545939‑4546232
                                                                                                                                                 |                                                                                                                                                    
gTTTTCTAATTTCGACAACGCTTTTTCCTTCGTAATTATGGTTATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAATTGa                                                                                                                                                   <  1:169849/149‑1 (MQ=255)
   ttCTAATTTCGACAACGCTTTTTCCATCGTAATTATGGTTATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCa                                                                                                                                                >  1:83514/1‑149 (MQ=255)
   ttCTAATTTCGACAACGCTTTTTCCATCGTAATTATGGTTATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCa                                                                                                                                                >  1:384138/1‑149 (MQ=255)
              acacCGCTTTTTCCATCGTAATTATGGTTATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTaataat                                                                                                                                     <  1:352644/149‑1 (MQ=255)
                    cTTTTTCCATCGTAATTATGGTTATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAACACACGTGTGAACTCACTGTCGACTATTGTGTGACGAAGGAATTGAGCATCTGTAATAATTTGAct                                                                                                                               <  1:252901/149‑1 (MQ=255)
                     tttttCCATCGTAATTATGGTTATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGActc                                                                                                                              >  1:174009/1‑149 (MQ=255)
                                         ttATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCGTATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGTATTGAGCATCTGTAATAAGTTGACTCTGAAGGGCATTGCTTAATgg                                                                                                          >  1:225840/1‑149 (MQ=255)
                                            ttGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAATTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAAt                                                                                                            <  2:124028/144‑1 (MQ=255)
                                               ccACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAATTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGa                                                                                                    >  1:234264/1‑149 (MQ=255)
                                               ccACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTAGACTATTGGGTGATGAAGGAAGTAAGAGTCTGTAATACTTTGACTCTGAAAGGAATTGCTTAATggg                                                                                                         >  2:278378/1‑143 (MQ=255)
                                                        agagGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAATTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGt                                                                                           >  1:3598/1‑149 (MQ=255)
                                                        agagGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGt                                                                                           <  1:341663/149‑1 (MQ=255)
                                                                          ttttCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAg                                                                              <  2:126852/144‑1 (MQ=255)
                                                                                   tCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACt                                                                     <  2:333093/144‑1 (MQ=255)
                                                                                        gCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTCATGAAGGAAGTGAGCATCCGTAATAATTTGACTCTGAAGGGCTTTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGt                                                                <  2:192970/144‑1 (MQ=255)
                                                                                                 ttttAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAATTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAATTAGAt                                                  >  1:24642/1‑149 (MQ=255)
                                                                                                       tttACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAAttt                                            >  1:269486/1‑149 (MQ=255)
                                                                                                            gtgtAAACTCACTGTCGACTATTGGGTGATCGTAATGGGGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTGTATGAGTATTTCACTGATGTTTAGAAACATAGATAAAttt                                            >  2:77118/1‑144 (MQ=255)
                                                                                                               tAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTCGGATTAGAGATAAATTTTTc                                         >  2:89812/1‑144 (MQ=255)
                                                                                                                        tGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGTATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTaaa                                <  2:127368/144‑1 (MQ=255)
                                                                                                                          tCGACTATTGGGTGATGAAGGAATTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTAAAAAGAGaa                         <  1:70030/149‑1 (MQ=255)
                                                                                                                             aCTATTGGGTGATGAAGGAATTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTAAAAAGAGAAGTa                      <  1:246139/149‑1 (MQ=255)
                                                                                                                                    ggTGATGAAGGAATTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTAAAAAGAGAAGTAAACAAAt               <  1:238417/149‑1 (MQ=255)
                                                                                                                                      tgatgaAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTAAAAAGAGAAGTAAACAAATGa             >  1:247616/1‑149 (MQ=255)
                                                                                                                                           aaggaagTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTGTAAAGAGCAGTCAACAAATGa             <  2:346634/144‑1 (MQ=255)
                                                                                                                                           aaggaagTGAGCATCTGTAATAATTTGACTCTGAAGGGCATGGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTAAAAAGAGAAGTAAACAAATGa             <  2:74722/144‑1 (MQ=255)
                                                                                                                                                 gTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTAAAAAGAGAAGTAAACAAATGACATGCATGttt  <  1:100173/149‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                                    
GTTTTCTAATTTCGACAACGCTTTTTCCATCGTAATTATGGTTATTGCCACGAGTAAGAGGCGGAAGATAGATGTTTTCCGAATCCATGCGTGCATATTTTAATTTACGTGTAAACTCACTGTCGACTATTGGGTGATGAAGGAAGTGAGCATCTGTAATAATTTGACTCTGAAGGGCATTGCTTAATGGCATAGACATAATAGTTACCTTTTATGAGTATTTCACTGATGTTTAGAAAAATAGATAAATTTTTCTGTAGTAAAAAGAGAAGTAAACAAATGACATGCATGTTT  >  CP009273/4545939‑4546232

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑