Predicted mutation
evidence seq id position mutation annotation gene description
RA CP009273 468,288 A→T K79* (AAG→TAG)  glnK → nitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP009273468,2880AT95.9% 144.9 / NA 49K79* (AAG→TAG) glnKnitrogen assimilation regulatory protein for GlnL, GlnE, and AmtB
Reads supporting (aligned to +/- strand):  ref base A (0/0);  major base T (28/19);  minor base C (1/1);  total (29/20)
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

ACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGAAAAATG  >  CP009273/468144‑468424
                                                                                                                                                |                                                                                                                                        
aCCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAggc                                                                                                                                      >  1:908765/1‑149 (MQ=255)
aCCGAAGGCAAAGGTTCCGGGCCTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAggc                                                                                                                                      <  1:907044/149‑1 (MQ=255)
     aGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCtt                                                                                                                                 >  1:300104/1‑149 (MQ=255)
         aaagtgttCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCCATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCt                                                                                                                                  <  2:361752/138‑1 (MQ=255)
         aaaGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTacac                                                                                                                             >  1:651676/1‑149 (MQ=255)
          aaGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCtt                                                                                                                                 <  2:1006144/144‑1 (MQ=255)
                gcGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCg                                                                                                                           <  2:567333/143‑1 (MQ=255)
                    gcgcCAGGAAGGGCATGCCGAGCTGCACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTg                                                                                                                  <  1:405971/149‑1 (MQ=255)
                           aaaGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGc                                                                                                                >  2:851189/1‑144 (MQ=255)
                           aaaGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGGCAGTTGGGCGGCTTACGCCGGAAAAAATGGc                                                                                                                >  2:70990/1‑144 (MQ=255)
                               ggCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCaaa                                                                                                       >  1:797611/1‑149 (MQ=255)
                                        aGCTGGACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTtcgtc                                                                                              <  1:274468/149‑1 (MQ=255)
                                            gTACCGGGGGGGGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGGGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTtcgt                                                                                               <  2:866514/144‑1 (MQ=255)
                                             tACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTtcgtc                                                                                              >  2:1011133/1‑144 (MQ=255)
                                             tACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATCGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTtcgtc                                                                                              >  2:755538/1‑144 (MQ=255)
                                                   ggggCGGAATAAAGCGTCAATTTCCTTCCAAAAGTAAAAATTGATGTGGCGAAAGCTGATAACCAACTCAATCAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGaa                                                                                        <  2:961563/144‑1 (MQ=255)
                                                    gggCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCaa                                                                                  <  1:244532/149‑1 (MQ=255)
                                                      gCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAAcg                                                                                >  1:306530/1‑149 (MQ=255)
                                                       cGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGCTGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACGCCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAAcga                                                                               >  1:133837/1‑148 (MQ=255)
                                                             aCAGCGTCAATTCCCTGCCAAAAGTAAAAATGGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCatt                                                                         <  1:10805/149‑1 (MQ=255)
                                                                              ccAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTAcc                                                             >  2:496754/1‑144 (MQ=255)
                                                                               cAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCg                                                            <  2:760758/144‑1 (MQ=255)
                                                                                     tAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAg                                                      >  2:294817/1‑144 (MQ=255)
                                                                                      aaaaaTTGATGTGGCGATTGCTGATGACCAACTCGCTGAAGTGATCGATATCGTCAGATAGGCGGCTTACACCGGCAAAATTAGCCACGGCGAAGTCTGCATCCCCGAATTGCAAGGCGCAATTCGCATTCGTACGGGCGaacg                                                     >  2:474694/1‑142 (MQ=255)
                                                                                       aaaaTTGATGTGGCGATTGCTGATGACCACCTCACGCGTGGGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCcgacga                                               >  1:1108510/1‑149 (MQ=255)
                                                                                         aaTTGAGGTTGCGGTTGCTGATGACCAACTCGATGAAGTGATCGAGATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGTAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCcga                                                  <  2:332251/144‑1 (MQ=255)
                                                                                            tGATGTGGCGATTGCTGAGGACCAACTCGATGAAGTGATAGATCGGACGAGGTGTGCGTCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCTTACCGGCGAAGCCGACGAAgcgg                                          <  1:591378/149‑1 (MQ=255)
                                                                                                   gCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTa                                   >  1:337457/1‑149 (MQ=255)
                                                                                                       ttGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGt                                    <  2:277844/144‑1 (MQ=255)
                                                                                                          cTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAAt                                 >  2:910123/1‑144 (MQ=255)
                                                                                                           tgatgcCCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGCCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCGCTgg                           >  1:241055/1‑149 (MQ=255)
                                                                                                           tgatgaCCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCATCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTgc                           >  1:452084/1‑148 (MQ=255)
                                                                                                           tgatgaCCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGACAAAATCTGCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGCCGAAGCGGCGCTGTAAtc                                >  2:310322/1‑144 (MQ=255)
                                                                                                           taatgaCCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGCCGAAGCGGCGCTGTAATCTCTgg                           >  1:352598/3‑149 (MQ=255)
                                                                                                               gaCCACCTCGATGAAGTGATCGACATCGTCAGGTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTg                            <  2:675721/144‑1 (MQ=255)
                                                                                                               gaCCAACTCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGGGGCGCTATAATCTCTGGcacc                       >  1:153123/1‑148 (MQ=255)
                                                                                                                gccgacgcGATGAAGTGATCGATATCGGCAGTTAGGCGGCTGACACCGGAAAAATTGGCGACGGCAAAATCTTCGTAGCTGAATTGCAACGCGTCAGTCGTATTCGTACCGGAGAAGCCGACGAAGCGGCGTTGTAATCTCTgg                           <  2:33731/137‑1 (MQ=255)
                                                                                                                      tCGATGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAAc                <  1:498138/149‑1 (MQ=255)
                                                                                                                        gATGAAGTGATCGATATCGTCAGTCAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCCCCCAGCAACAg              >  1:565407/1‑149 (MQ=255)
                                                                                                                         aTGAAGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTGCGTCGCTGAATTGCAACGCGGCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCa                  >  2:768161/1‑144 (MQ=255)
                                                                                                                            aaGTGATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAAc          >  1:64724/1‑149 (MQ=255)
                                                                                                                                gATCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGaa           <  2:405134/144‑1 (MQ=255)
                                                                                                                                 aTCGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGCAc          >  2:1029817/1‑144 (MQ=255)
                                                                                                                                  tCGATATCGTCAGTCAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCACCGCGTCATGCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGaaaaa    <  1:326493/149‑1 (MQ=255)
                                                                                                                                   cGATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCGCTGGCACACAGCAACAGGAACGAAAAAt   >  1:317413/1‑149 (MQ=255)
                                                                                                                                    gATATCGTCAGTTAGGCGGCTTAGACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGAAAAATg  >  1:733781/1‑149 (MQ=255)
                                                                                                                                    gATATCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGaaaaagg  >  1:223865/1‑147 (MQ=255)
                                                                                                                                     atatCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACCACGCAACAGGAACGaaa      >  2:909251/1‑144 (MQ=255)
                                                                                                                                      tatCGTCAGTTAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCTTTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGaaaa     <  2:773840/144‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                        
ACCGAAGTGAAAGGTTTCGGGCGTCAGAAAGGGCATGCCGAGCTGTACCGGGGGGCGGAATACAGCGTCAATTTCCTGCCAAAAGTAAAAATTGATGTGGCGATTGCTGATGACCAACTCGATGAAGTGATCGATATCGTCAGTAAGGCGGCTTACACCGGAAAAATTGGCGACGGCAAAATCTTCGTCGCTGAATTGCAACGCGTCATTCGTATTCGTACCGGCGAAGCCGACGAAGCGGCGCTGTAATCTCTGGCACACAGCAACAGGAACGAAAAATG  >  CP009273/468144‑468424

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑