Predicted mutation
evidence seq id position mutation annotation gene description
RA CP006881 2,175,239 T→C L275L (TTA→TTG)  U712_10880 ← putative glycosyltransferase ypjH

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068812,175,2390TC96.8% 187.3 / ‑2.6 62L275L (TTA→TTG) U712_10880putative glycosyltransferase ypjH
Reads supporting (aligned to +/- strand):  ref base T (1/1);  new base C (33/27);  total (34/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.83e-01

CACCAAAAATCCGCTCACATTGTTCTTAATAACCTCCGGAATACCGCCAATGTTTGTTCCGATACAAGGCACTCCACAAGCCATCGCCTCAAGAAGGACAAGGCCGAAGCTTTCTTTTTCAGACAGCAGCAGCTTTAAATCGCTAATGGAATAAAGCTCCTCAACACGGTCTTGATTTCCAAGCATTAAAACTTGGTCTTCTAATCCATATTTTCTGACAAGCTCACAGGCTGTCGATTTCTCTGGACCGTCTCCAAC  >  CP006881/2175104‑2175361
                                                                                                                                       |                                                                                                                          
caccaAAAATCCGCTCACATTGTTTTTTATAACCTCAGGGATACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCaaa                                                                                                                         <  6:15404/139‑1 (MQ=255)
caccaAAAATCCGCTCACATTGTTTTTTATAACCTCAGGGATACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCaa                                                                                                                          <  7:45242/138‑1 (MQ=255)
caccaAAAATCCGCTCACATTGTTTTTTATAACCTCAGGGATACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCaa                                                                                                                          <  8:55437/138‑1 (MQ=255)
       aaTCCGCTCACATTGTTTTTTATAACCTCAGGGATACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTaa                                                                                                                  >  4:116589/1‑139 (MQ=255)
       aaTCCGCTCACATTGTTTTTTATAACCTCAGGGATACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTaa                                                                                                                  <  1:435073/139‑1 (MQ=255)
                 caTTGTTTTTTATAACCTCAGGGATACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAg                                                                                                        <  3:116589/139‑1 (MQ=255)
                 caTTGTTTTTTATAACCTCAGGGATACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAg                                                                                                        <  1:196375/139‑1 (MQ=255)
                                ccTCCGGAATACCGCCAATGTTTGTTCCGATACAAGGCACTCCACAAGCCATCGCCTCAAGAAGGACAAGGCCGAAGCTTTCTTTTTCAGACAGCAGCAGCTTTAAATCGCTAATGGAATAAAGCTCCTCAaca                                                                                              >  5:63682/1‑134 (MQ=255)
                                ccTCCGGAATACCGCCAATGTTTGTTCCGATACAAGGCACTCCACAAGCCATCGCCTCAAGAAGGACAAGGCCGAAGCTTTCTTTTTCAGACAGCAGCAGCTTTAAATCGCTAATGGAATAAAGCTCCTCAaca                                                                                              <  6:63682/134‑1 (MQ=255)
                                ccTCAGGGATACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTc                                                                                         >  1:262877/1‑139 (MQ=255)
                                    agggaTACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCtt                                                                                       <  1:365596/133‑1 (MQ=255)
                                    agggaTACCGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGa                                                                                     >  2:407726/5‑139 (MQ=255)
                                           ccGCCAATGTTTGTTCCAATACAAGGCCCTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCaa                                                                              >  3:62832/1‑139 (MQ=255)
                                           ccGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATaa                                                                                                          >  6:211236/1‑111 (MQ=255)
                                           ccGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAaca                                                                                              >  3:145276/1‑123 (MQ=255)
                                           ccGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTcc                                                                                >  8:387860/1‑137 (MQ=255)
                                           ccGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCaa                                                                              >  8:261649/1‑139 (MQ=255)
                                           ccGCCAATGTTTGTTCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCaa                                                                              >  8:158078/1‑139 (MQ=255)
                                                      tgttCCAATACAAGGCACTCCGCACGCCCTCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACt                                                                   >  4:211595/1‑139 (MQ=255)
                                                      tgttCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAATCTCTTCATCACGGTCTTGATTTCCAAGCATTAAGACt                                                                   >  7:239500/1‑139 (MQ=255)
                                                      tgttCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACt                                                                   >  1:39864/1‑139 (MQ=255)
                                                         tCCAATACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGAACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTgg                                                                >  1:208108/1‑139 (MQ=255)
                                                            aaTACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGtct                                                             >  8:179793/2‑139 (MQ=255)
                                                             aTACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTcc                                                                                >  1:107232/1‑119 (MQ=255)
                                                             aTACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTcc                                                                                <  2:107232/119‑1 (MQ=255)
                                                              tACAAGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGtcttc                                                           >  5:55305/1‑139 (MQ=255)
                                                               aCAAGGCACTCCGCGAGCCATCGCGTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCATCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGtcttcc                                                          <  6:138452/139‑2 (MQ=255)
                                                                cAAGGCACTCCGCAAGCCATCGCTTCAAGCAGAACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGtcttcc                                                          <  2:208108/138‑2 (MQ=255)
                                                                  aGGCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAg                                                                                                        <  4:32383/90‑1 (MQ=255)
                                                                   ggCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTg                                                                 >  3:400499/1‑128 (MQ=255)
                                                                   ggCACTCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTg                                                                 <  4:400499/128‑1 (MQ=255)
                                                                        tCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCa                                                                               >  7:74951/1‑109 (MQ=255)
                                                                        tCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCa                                                                               <  8:74951/109‑1 (MQ=255)
                                                                        tCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCatat                                                 >  8:151358/1‑139 (MQ=255)
                                                                        tCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCatat                                                 >  6:284017/1‑139 (MQ=255)
                                                                        tCCGCAAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCatat                                                 >  4:4755/1‑139 (MQ=255)
                                                                          cgcaAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCaa                                                                                                                          <  4:196312/62‑1 (MQ=255)
                                                                          cgcaAGCCATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCATATCGCTAATAGAATAAAg                                                                                                        <  4:68101/80‑1 (MQ=255)
                                                                                ccATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGat                                         <  2:262877/139‑2 (MQ=255)
                                                                                 cATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGata                                        <  6:143029/139‑3 (MQ=255)
                                                                                 cATCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTATCAGATAACAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGata                                        <  4:162694/139‑3 (MQ=255)
                                                                                  aTCGCTTCAAGCAGGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGat                                         >  4:182342/1‑136 (MQ=255)
                                                                                           agcagGACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAgg                              <  7:179793/136‑1 (MQ=255)
                                                                                                gACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGat                                         >  7:137068/1‑122 (MQ=255)
                                                                                                gACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGat                                         <  8:137068/123‑2 (MQ=255)
                                                                                                gACAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTc                         >  7:76905/1‑139 (MQ=255)
                                                                                                 aCAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTc                         >  1:99942/1‑138 (MQ=255)
                                                                                                  cAAGGCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGa                       <  2:39864/139‑1 (MQ=255)
                                                                                                     ggCCAAAGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGAttt                    >  8:410469/1‑139 (MQ=255)
                                                                                                     ggCCAAAGCTATCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGAttt                    >  6:155535/1‑139 (MQ=255)
                                                                                                          aaGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGATTtctccg               >  2:160103/1‑137 (MQ=255)
                                                                                                          aaGCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGATTtctccg               >  3:423758/1‑137 (MQ=255)
                                                                                                            gCTTTCTTTTTCAGATAGCAGCAGCTTCAAATCGCTAATAGAATCAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGATTTCTCCGGa             <  1:160103/139‑1 (MQ=255)
                                                                                                                    tttCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGTTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGATTTCTCCGGACCGtctc      <  6:55305/138‑1 (MQ=255)
                                                                                                                    tttCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGATTTCTCCGGACCGtctc      <  7:387860/138‑1 (MQ=255)
                                                                                                                    tttCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGATTTCTCCGGACCGtctc      <  3:4755/138‑1 (MQ=255)
                                                                                                                      tCAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAATACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGATTTCTCCGGACCGTCAccgc   >  5:45931/1‑137 (MQ=255)
                                                                                                                       cAGATAGCAGCAGCTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGCCATATTTTCTGATAAGCTCGCAGGCTGTCGATTTCTCCGGACCGTCTCCGAc  >  1:160818/1‑139 (MQ=255)
                                                                                                                              cagcagcTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCa                                                                               >  3:97930/1‑55 (MQ=255)
                                                                                                                              cagcagcTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCa                                                                               <  4:97930/55‑1 (MQ=255)
                                                                                                                              cagcagcTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGcc                                                     >  2:380974/1‑81 (MQ=255)
                                                                                                                              cagcagcTTCAAATCGCTAATAGAATAAAGATCTTCAACACGGTCTTGATTTCCAAGCATTAAGACTTGGTCTTCCAAGcc                                                     <  1:380974/81‑1 (MQ=255)
                                                                                                                                       |                                                                                                                          
CACCAAAAATCCGCTCACATTGTTCTTAATAACCTCCGGAATACCGCCAATGTTTGTTCCGATACAAGGCACTCCACAAGCCATCGCCTCAAGAAGGACAAGGCCGAAGCTTTCTTTTTCAGACAGCAGCAGCTTTAAATCGCTAATGGAATAAAGCTCCTCAACACGGTCTTGATTTCCAAGCATTAAAACTTGGTCTTCTAATCCATATTTTCTGACAAGCTCACAGGCTGTCGATTTCTCTGGACCGTCTCCAAC  >  CP006881/2175104‑2175361

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑