Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,950,468 G→T intergenic (+48/‑39) ilvL → / → ilvX ilvG operon leader peptide/uncharacterized protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,950,4680GT95.5% 207.2 / 2.9 66intergenic (+48/‑39)ilvL/ilvXilvG operon leader peptide/uncharacterized protein
Reads supporting (aligned to +/- strand):  ref base G (0/3);  new base T (25/38);  total (25/41)
Fisher's exact test for biased strand distribution p-value = 2.83e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.08e-01

TGATTATTATCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAACTATG  >  NC_000913/3950371‑3950562
                                                                                                 |                                                                                              
tgATTATTATCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGttt                                                                                              >  1:979885/1‑100 (MQ=255)
 gATTATTATCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGtttt                                                                                             >  1:419477/1‑100 (MQ=255)
  attattATCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTtttt                                                                                            <  1:1368887/100‑1 (MQ=255)
   ttattaTCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGtttttt                                                                                           <  1:1141064/100‑1 (MQ=255)
   ttattaTCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGtttttt                                                                                           >  1:421965/1‑100 (MQ=255)
     attatCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGtttttttt                                                                                         >  2:1270050/1‑100 (MQ=255)
     attatCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGtttttttt                                                                                         <  1:1243845/100‑1 (MQ=255)
        atCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGa                                                                                      <  2:85501/100‑1 (MQ=255)
        atCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGa                                                                                      >  2:486743/1‑100 (MQ=255)
          cccACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGAc                                                                                     >  2:1472145/1‑99 (MQ=255)
           ccACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCt                                                                                   >  2:1175061/1‑100 (MQ=255)
           ccACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCt                                                                                   >  2:786833/1‑100 (MQ=255)
            cACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCCAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCtt                                                                                  <  2:1013264/100‑1 (MQ=255)
            cACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCtt                                                                                  <  2:735455/100‑1 (MQ=255)
            cACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCtt                                                                                  >  1:518003/1‑100 (MQ=255)
             aCCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGACAGGTCCGGGGTTTTTTTTTGACCTTa                                                                                 <  2:231416/100‑1 (MQ=255)
              ccGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTaa                                                                                <  2:1465033/100‑1 (MQ=255)
                  gCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAAc                                                                            <  1:305287/100‑1 (MQ=255)
                  gCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAAc                                                                            <  2:494425/100‑1 (MQ=255)
                  gCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCC‑GGGGTTTTTTTTGACCTTAAAAACa                                                                           <  1:471099/100‑1 (MQ=255)
                   cGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACa                                                                           <  1:390091/100‑1 (MQ=255)
                   cGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACa                                                                           <  1:1254937/100‑1 (MQ=255)
                     gggCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATa                                                                         <  1:202450/100‑1 (MQ=255)
                        cTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAAcc                                                                      >  2:1527236/1‑100 (MQ=255)
                        cTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAAcc                                                                      >  1:1465227/1‑100 (MQ=255)
                        cTGCACTTGGACGAGCAAAGGCTTAGAGATCAAGCCTTAACGAACTATGCACCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAAcc                                                                      <  2:70998/100‑1 (MQ=255)
                         tGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTAAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCg                                                                     >  1:1114228/1‑100 (MQ=255)
                          gCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCga                                                                    <  1:405313/100‑1 (MQ=255)
                            aCTTGGACGAGGAAAGGCTTAGAGAGCAGGCCTTAACGATCTAAGACCCCCGCACCGAAAGGTCGGGGGTTTTTTTTTGACCTTAAAAACATAACCgagg                                                                  <  2:543275/100‑1 (MQ=255)
                              ttGGACGAGGGAAGGCTTAGAGATCGAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCgagg                                                                  <  2:419476/98‑1 (MQ=255)
                               tGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGc                                                               >  2:279643/1‑100 (MQ=255)
                                ggACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCa                                                              >  2:551495/1‑100 (MQ=255)
                                ggACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCa                                                              <  1:1286841/100‑1 (MQ=255)
                                ggACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCACGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAcaca                                                                           >  2:1385313/1‑87 (MQ=255)
                                   cGAGGAAAGGCTTAGAGATCAAGCCTGAACGAACTAAGACCCCCGCACCGAAAGGGTCGGGGTTTTTCTTTGACCTTAAAAACATTACCGAGGAGCata                                                            <  1:1066357/99‑3 (MQ=255)
                                       gAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATg                                                       <  1:1151740/100‑1 (MQ=255)
                                        aaaGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGa                                                      <  2:1490881/100‑1 (MQ=255)
                                             cTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAAc                                                 >  1:761316/1‑100 (MQ=255)
                                             cTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAAc                                                 <  1:1164106/100‑1 (MQ=255)
                                             cTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAAc                                                 <  1:452096/100‑1 (MQ=255)
                                              ttAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACa                                                >  1:834582/1‑100 (MQ=255)
                                               tAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAg                                               >  2:1070730/1‑100 (MQ=255)
                                                   gaTCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGcaca                                           <  2:538220/100‑1 (MQ=255)
                                                   gaTCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGcaca                                           >  1:538221/1‑100 (MQ=255)
                                                   gaTCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGcaca                                           >  1:624200/1‑100 (MQ=255)
                                                    aTCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACaa                                          >  1:561344/1‑100 (MQ=255)
                                                           cTTAACGAACTAAGACCCCCGGACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAAtt                                      <  1:49679/97‑1 (MQ=255)
                                                           cTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTg                                   <  2:267876/100‑1 (MQ=255)
                                                               aCGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAGAATACTGTTtc                               <  2:832636/100‑1 (MQ=255)
                                                               aCGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTtc                               >  1:25530/1‑100 (MQ=255)
                                                               aCGAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTtc                               <  2:25530/100‑1 (MQ=255)
                                                                cGAACTAAGACCCCCGCACCGAAAGGTCC‑GGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTtctc                             <  2:58348/100‑1 (MQ=255)
                                                                 gAACTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTtctc                             <  2:209188/100‑1 (MQ=255)
                                                                  aaCTAAGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCa                            <  1:1356006/100‑1 (MQ=255)
                                                                   aCTAAGACCCCCGCGCCGAGAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCaa                           <  1:786838/100‑1 (MQ=255)
                                                                     tAAAACCCCCACACCGAAAGGGCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGGGGACCAGACAATGAATAACAGCACAAAATTCTGTTTCTCa                            <  2:315681/97‑1 (MQ=255)
                                                                      aaGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGAt                        >  1:806140/1‑100 (MQ=255)
                                                                      aaGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGAt                        <  1:1501484/100‑1 (MQ=255)
                                                                      aaGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCAGTTTCTCAAGAt                        <  1:1035834/100‑1 (MQ=255)
                                                                       aGACCCCCGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGAtt                       >  2:96090/1‑100 (MQ=255)
                                                                          cccccGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACATCACAATATTCTGTTTCTCAAGATTCa                     <  2:324353/99‑1 (MQ=255)
                                                                          cccccGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAg                    <  1:1020127/100‑1 (MQ=255)
                                                                           ccccGCACCGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAgg                   <  1:801226/100‑1 (MQ=255)
                                                                                  ccGAAAGGTCCGGGGTTTTTTTTTTTTTTTTTTTACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACgggg             >  2:560617/1‑99 (MQ=255)
                                                                                   cGAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGaa           >  1:486314/1‑100 (MQ=255)
                                                                                    gaaatttCCCGGGTTTTTTTTTGACCTTAAAAACATAATCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGa                         <  2:1574729/79‑1 (MQ=255)
                                                                                    gAAAGGTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGaa           >  2:1112618/1‑99 (MQ=255)
                                                                                        ggTCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGaactaac      <  1:647404/100‑1 (MQ=255)
                                                                                          tCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAactaacta    <  2:1279111/100‑1 (MQ=255)
                                                                                          tCCGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAactaacta    >  2:901660/1‑100 (MQ=255)
                                                                                           ccGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAACTAt   <  1:13386/100‑1 (MQ=255)
                                                                                            cGGGGTTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAACTATg  >  1:723210/1‑100 (MQ=255)
                                                                                                 |                                                                                              
TGATTATTATCCCACCGTGCGGGGCTGCACTTGGACGAGGAAAGGCTTAGAGATCAAGCCTTAACGAACTAAGACCCCCGCACCGAAAGGTCCGGGGGTTTTTTTTGACCTTAAAAACATAACCGAGGAGCAGACAATGAATAACAGCACAAAATTCTGTTTCTCAAGATTCAGGACGGGGAACTAACTATG  >  NC_000913/3950371‑3950562

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑