Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 39,490 C→A 8.1% V73V (GTC→GTA)  PP_0036 → transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_00294739,4900CA 8.1% 146.3 / 3.3 50V73V (GTC→GTA) PP_0036transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (22/23);  new base A (2/2);  total (24/26)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.95e-01

CCAATTGATGATCAGCTGGCCGTAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCAGGCTTACCATCGCGATCACAGAGCCAGTG  >  NC_002947/39341‑39631
                                                                                                                                                     |                                                                                                                                             
ccAATTGATGATCAGCTGGCCGTAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTc                                                                                                                                               <  1:1064151/150‑1 (MQ=255)
 cAATTGATGATCAGCTGGCCGTAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCt                                                                                                                                              >  2:907951/1‑150 (MQ=255)
  aaTTGATGATCAGCTGGCCGTAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTTCTCCCGTGTTTGTCTa                                                                                                                                             <  2:1294889/150‑1 (MQ=255)
       atgatCAGCTGGCCGTAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAac                                                                                                                                        >  2:1412249/1‑150 (MQ=255)
               cTGGCCGTAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGCGAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAg                                                                                                                                <  1:95581/150‑1 (MQ=255)
                     gTAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGcc                                                                                                                          >  2:28923/1‑150 (MQ=255)
                      tAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGccc                                                                                                                         >  1:133964/1‑150 (MQ=255)
                      tAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGccc                                                                                                                         >  2:336458/1‑150 (MQ=255)
                           tttttCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGAcc                                                                                                                    >  1:1414909/1‑150 (MQ=255)
                           tttttCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTAGACAAacacgg                                                                                                                                    >  1:757643/1‑132 (MQ=255)
                           tttttCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTAGACAAacacgg                                                                                                                                    <  2:757643/134‑3 (MQ=255)
                            ttttCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGAccc                                                                                                                   <  2:1414909/150‑1 (MQ=255)
                               tCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACaaa                                                                                                                                         >  2:92120/1‑125 (MQ=255)
                               tCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACaaa                                                                                                                                         <  1:92120/125‑1 (MQ=255)
                                          cGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAgg                                                                                                     <  1:985170/150‑1 (MQ=255)
                                          cGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAgg                                                                                                     <  1:907951/150‑1 (MQ=255)
                                               tgCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAg                                                                                                <  2:16893/150‑1 (MQ=255)
                                                 ccAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGcc                                                                                              >  2:480986/1‑150 (MQ=255)
                                                  cAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGGGAGGATCAGCCa                                                                                             >  1:127123/1‑150 (MQ=255)
                                                   aGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAg                                                                                                >  2:585531/1‑146 (MQ=255)
                                                   aGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAg                                                                                                <  1:585531/146‑1 (MQ=255)
                                                     tttCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTa                                                                                                                                             <  2:1397219/99‑1 (MQ=255)
                                                     tttCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTa                                                                                                                                             >  1:1397219/1‑99 (MQ=255)
                                                      ttCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTAc                                                                                         <  1:28923/150‑1 (MQ=255)
                                                         aaaCAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGc                                                                                                           >  1:1060139/1‑129 (MQ=255)
                                                         aaaCAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGc                                                                                                           <  2:1060139/129‑1 (MQ=255)
                                                          aaCAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCtgt                                                                                     <  2:366469/150‑1 (MQ=255)
                                                          aaCAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCtgt                                                                                     <  2:1198657/150‑1 (MQ=255)
                                                               gCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGACACTGGAAGAGCACAGTGGTGCTCCCGTGTTTGGCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAg                                                                                >  1:1088026/1‑150 (MQ=255)
                                                                    ccGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCtt                                                                           >  1:1136501/1‑150 (MQ=255)
                                                                            tCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAg                                                                   >  1:135949/1‑150 (MQ=255)
                                                                              aaTGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGAc                                                                 <  2:135949/150‑1 (MQ=255)
                                                                                    ccAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCtt                                                           <  1:480986/150‑1 (MQ=255)
                                                                                    ccAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCtt                                                           <  2:1136501/150‑1 (MQ=255)
                                                                                    ccAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCtt                                                           <  1:1317516/150‑1 (MQ=255)
                                                                                     cAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTg                                                          <  1:336458/150‑1 (MQ=255)
                                                                                           tAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGt                                                    >  2:1087120/1‑150 (MQ=255)
                                                                                                    ggAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGctct                                                                            >  2:40262/1‑117 (MQ=255)
                                                                                                    ggAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGctct                                                                            <  1:40262/117‑1 (MQ=255)
                                                                                                    ggAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGaaa                                           >  1:300954/1‑150 (MQ=255)
                                                                                                        ccGCTTGGAGAAACCGGAAGAGCACATTGGTGCTCCCGTGTTTGTTTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTAGGCCCCGACGGCCTTGGCAAGTCCGGTGAAAAGGa                                       <  2:313840/149‑1 (MQ=255)
                                                                                                                agaAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCa                               <  1:1252916/150‑1 (MQ=255)
                                                                                                                    aCTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCAGGCt                           >  1:916550/1‑150 (MQ=255)
                                                                                                                           gagCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCAGGCTTACCATc                    <  2:133964/150‑1 (MQ=255)
                                                                                                                               acaTTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCAGGCTTACCATCGCGa                >  1:517363/1‑150 (MQ=255)
                                                                                                                                           ccGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCAGGCTTACCATCGCGATCACAGAGCCAg    >  2:166727/1‑150 (MQ=255)
                                                                                                                                             gtgtTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCAGGCTTACCATCGCGATCACAGAGCCAGTg  <  1:1412249/150‑1 (MQ=255)
                                                                                                                                             gtgtTTGTAGACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTAc                                                                                         >  2:1285416/1‑63 (MQ=39)
                                                                                                                                             gtgtTTGTAGACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTAc                                                                                         <  1:1285416/63‑1 (MQ=255)
                                                                                                                                              tgtTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAGGTCCGGTGAAAAGGAAGTCCCCAGGCTTACCATCGCGATCACAGAGCCAGTg  >  1:1358065/1‑149 (MQ=255)
                                                                                                                                              tgtTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGCGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCAGGCTTACCATCGCGATCACAGAGCCAGTg  <  2:1358065/149‑1 (MQ=255)
                                                                                                                                                     |                                                                                                                                             
CCAATTGATGATCAGCTGGCCGTAGAGTTTTTCGCAACAGCACGTTGTGCCAGTTTCAAACAGGCTGCCCGAGGGCTCAATGTGCCAGTGGTAGGCCTGCGGAAACGCTTGGAGAAACTGGAAGAGCACATTGGTGCTCCCGTGTTTGTCTACAAACACAACAAGCTTGCCCTGACCCGCACAGGCGAGAGGGTCAGCCATTACCTGTGCCAGCTCTTCGGCCCAGACGGCCTTGGCAAGTCCGGTGAAAAGGAAGTCCCCAGGCTTACCATCGCGATCACAGAGCCAGTG  >  NC_002947/39341‑39631

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑