Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 2,042,939 T→A 8.9% F37L (TTT→TTA)  U712_10110 → Sensor histidine kinase desK

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068812,042,9390TA 8.9% 129.5 / 2.4 45F37L (TTT→TTA) U712_10110Sensor histidine kinase desK
Reads supporting (aligned to +/- strand):  ref base T (26/15);  new base A (2/2);  total (28/17)
Fisher's exact test for biased strand distribution p-value = 6.26e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.33e-01

AAGCTGAAAATGAGGTAAGATCATGATTAAAAATCATTTTACATTTCAAAAACTAAACGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCATTACTCTGTT  >  CP006881/2042807‑2043073
                                                                                                                                    |                                                                                                                                      
aaGCTGAAAATGAGGTAAGATCATGATTAAAATTCATTTTACATTTCAAAAACTAAACGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTAGttat                                                                                                                                   >  2:43772/1‑138 (MQ=255)
aaGCTGAAAATGAGGTAAGATCATGATTAAAAATCATTTTACATTTCAAAAACTAAACGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTAGttat                                                                                                                                   >  2:48099/1‑138 (MQ=255)
         aTGAGGTAAGATCATGATTAAAAATCATTTTACATTTCAAAAACTAAACGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGc                                                                                                                         <  4:25567/139‑1 (MQ=255)
             ggTAAGATCATGATTAAAAATCATTTTACATTTCAAAAACTAAACGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGcatca                                                                                                                     >  1:215910/1‑139 (MQ=255)
                             aaaaTCATTTTACATTTCAAAAACTAAACGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTAtt                                                                                                     >  8:89026/1‑139 (MQ=255)
                                                      aaaCGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCtttt                                                                            >  5:201227/1‑139 (MQ=255)
                                                       aaCGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTAGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTg                                                                           <  1:43772/139‑1 (MQ=255)
                                                       aaCGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTAGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTg                                                                           <  1:48099/139‑1 (MQ=255)
                                                                      tatataTGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGa                                                            >  8:227235/1‑139 (MQ=255)
                                                                      tatataTGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGa                                                            >  3:117541/1‑139 (MQ=255)
                                                                      tatataTGGACGATATTTTTCATCCTCCCCTTCTACATTATATTGAAATGATGATATACATTTTTTATTTTTTTCGGCGTATATTTTTCGCGTTTATTTTTTTTGGTTTATGAGTTTGTGTTTGTGTAAAAAgggctgg                                                            >  2:136097/1‑134 (MQ=255)
                                                                        tatatGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGa                                                            <  7:89026/137‑1 (MQ=255)
                                                                             ggACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTTTAGGCATCATTTTGACGCTTTTATTTTTTTAGGTATATAGTTTTGCTTTTGTCTCAAAAGGCTGGACCattta                                                     >  1:223490/1‑139 (MQ=255)
                                                                              gACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGGTTTTATTTTTTTGGGTTTTTCGATTTGGTTTTGTGTGTAAAGGCTGGACCattttt                                                    >  1:162618/1‑137 (MQ=255)
                                                                              gACGATATTTTTCATCCTCCCCTTCTACTATATATGGAAATCATCATCAACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCatttat                                                    >  2:157870/1‑139 (MQ=255)
                                                                                cGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTTTATCGATTTGCTTTTTTATAAAAAGGCAGGACCatttattt                                                  >  2:87263/1‑139 (MQ=255)
                                                                                cGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCatttattt                                                  >  4:275679/1‑139 (MQ=255)
                                                                                cGATATTTTTCATCCTCCCCGTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCGTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCatttattt                                                  >  3:66413/1‑139 (MQ=255)
                                                                                cGATATTTTTCATCCTACCCTTCTACTTTATATTGAAATCATCATATACATTTGTTATTATTGTCGGCATCATATTTACGCTTTTAATTTATTAGGTATATCGATTTTATTTTGTCTCATAATTATGGACCatttatta                                                  >  2:187021/1‑138 (MQ=255)
                                                                                  atatTTTTCATCCTCCCCTTCTACTTTATATTGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGCCGGTTTTTTTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAATGGTTGACCATTTATTtgt                                                >  1:207805/1‑139 (MQ=255)
                                                                                  atatTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTtgt                                                >  6:276885/1‑139 (MQ=255)
                                                                                  atatTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTtgt                                                >  7:149747/1‑139 (MQ=255)
                                                                                  atatTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTtgt                                                >  7:212497/1‑139 (MQ=255)
                                                                                  atatTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCATATATTTTTTTCGGTAAAACGATTTTCTTTTGTCTCAAAAGGCTGGACCATTTATTtgt                                                >  4:278318/1‑139 (MQ=255)
                                                                                  atatTTTTCATCCTCCCCGTCTACTTTATATGGAAATCATCATGGACATTTGTTTTTATTGTCGGCCTGATTTTGACGCTGTTTTTTTTTTAGGTTTTTGGATTTGCTTTTGTGTCCAAAGGCGGGTCCAGTTATTtgt                                                >  4:170751/1‑139 (MQ=255)
                                                                                  atatTTTTCATCCTCCCCATCTTCTTTATATGGAAATAATCATCTAAATTTGTTTTTATTGTAGGGATAAATTTTAAGCGTTTTTTTTTTTAGTTTTATGGATTTTGTTTTTTGAGAAAAGGCTGGAACAATTTTTtgt                                                >  2:275786/1‑139 (MQ=255)
                                                                                             cctccCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGCCGCTTTTATTTTTTTCGGTTTATCGATTTGCTTTTGTCTCAAAAGGCGGGACCATTTATTTGTGGGGATTTtta                                     >  4:45205/1‑139 (MQ=255)
                                                                                             cctccCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATTTCGATTTGCTTTTTTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTtta                                     >  6:141536/1‑139 (MQ=255)
                                                                                             cctccCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTTCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTtta                                     >  3:6104/1‑139 (MQ=255)
                                                                                                           ttATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCAttt                        >  5:12666/1‑138 (MQ=255)
                                                                                                              tatGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCaa                     <  2:215910/138‑1 (MQ=255)
                                                                                                                tGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAAcc                   <  4:66413/138‑1 (MQ=255)
                                                                                                                tGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAAcc                   <  1:275786/138‑1 (MQ=255)
                                                                                                                  gAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGcc                <  3:278318/139‑1 (MQ=255)
                                                                                                                  gAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGc                 <  7:227235/138‑1 (MQ=255)
                                                                                                                  gAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGc                 <  1:157870/138‑1 (MQ=255)
                                                                                                                  gAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGc                 <  5:209038/138‑1 (MQ=255)
                                                                                                                        atcatcTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCAtt          >  5:249782/1‑139 (MQ=255)
                                                                                                                        atcatcTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCAt           >  8:276135/1‑138 (MQ=255)
                                                                                                                         tcatcTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCATTa         <  8:212497/139‑1 (MQ=255)
                                                                                                                           atcTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCATTAct       <  6:201227/139‑1 (MQ=255)
                                                                                                                           atcTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCATTAct       <  8:149747/139‑1 (MQ=255)
                                                                                                                                cATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCATTACTCTGtt  <  1:87263/139‑1 (MQ=255)
                                                                                                                                cATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCATTACTCTGtt  <  3:275679/139‑1 (MQ=255)
                                                                                                                                 aTTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCATTACTCTGtt  <  2:223490/138‑1 (MQ=255)
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AAGCTGAAAATGAGGTAAGATCATGATTAAAAATCATTTTACATTTCAAAAACTAAACGGGATTACGCCCTATATATGGACGATATTTTTCATCCTCCCCTTCTACTTTATATGGAAATCATCATCTACATTTGTTATTATTGTCGGCATCATTTTGACGCTTTTATTTTTTTCGGTATATCGATTTGCTTTTGTCTCAAAAGGCTGGACCATTTATTTGTGGGGATTTTTATTAATTGGCATTTCAACCGCCTCCATTACTCTGTT  >  CP006881/2042807‑2043073

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: ‑