Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,120,902 T→A 8.5% W115R (TGG→AGG)  PP_0982 → YjgP/YjgQ family permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,120,9020TA 8.5% 136.5 / 3.3 47W115R (TGG→AGG) PP_0982YjgP/YjgQ family permease
Reads supporting (aligned to +/- strand):  ref base T (18/25);  new base A (2/2);  total (20/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.65e-01

TGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTGATGGCTCGCGGGTAACCTATACCGAGCAA  >  NC_002947/1120756‑1121048
                                                                                                                                                  |                                                                                                                                                  
gggggCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCCGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCggg                                                                                                                                                  <  7:24807/148‑1 (MQ=255)
  gggCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGc                                                                                                                                                 <  6:313696/148‑1 (MQ=255)
   ggCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGct                                                                                                                                                >  4:276772/1‑148 (MQ=255)
            tCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCAGGctcaggctcagc                                                                                                                                      >  4:136256/1‑149 (MQ=255)
                cATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCAGGCTCAGGCTCAGCCAgg                                                                                                                                  <  3:136256/149‑1 (MQ=255)
                 aTCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCAGGCTCAGGCTCAGCCAGGc                                                                                                                                 <  2:22591/149‑1 (MQ=255)
                        tGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTg                                                                                                                          >  5:267031/1‑149 (MQ=255)
                               cGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGtt                                                                                                                    <  5:166171/148‑1 (MQ=255)
                               cGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTg                                                                                                                   <  3:104539/149‑1 (MQ=255)
                                   cgcCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCa                                                                                                               <  1:154131/149‑1 (MQ=255)
                                    gcCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAg                                                                                                              <  7:240835/149‑1 (MQ=255)
                                    gcCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAg                                                                                                              >  5:128943/1‑149 (MQ=255)
                                         tACCTTGAAAGCGATATGACCGTGCTGGCGTCCACTGGCATGATCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGGTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTgc                                                                                                          <  5:255253/148‑1 (MQ=255)
                                         tACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTgc                                                                                                          <  3:276772/148‑1 (MQ=255)
                                         tACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTgc                                                                                                          <  3:84337/148‑1 (MQ=255)
                                            cTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTg                                                                                                                   <  6:222285/136‑1 (MQ=255)
                                            cTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTg                                                                                                                   >  5:222285/1‑136 (MQ=255)
                                            cTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCAACGCCCAggggggcca                                                                                                      <  6:158391/149‑8 (MQ=255)
                                            cTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGACCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCATGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGAGATGCCCAGGTgcag                                                                                                        >  5:104937/1‑147 (MQ=255)
                                               gAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTgcag                                                                                                        >  3:61960/1‑144 (MQ=255)
                                               gAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGa                                                                                                    <  6:128943/148‑1 (MQ=255)
                                                 aaGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGatca                                                                                                 <  8:165748/149‑1 (MQ=255)
                                                       gaTGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATcagc                                                                                            >  6:285123/1‑148 (MQ=255)
                                                          gACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATcagccag                                                                                         >  4:315423/1‑148 (MQ=255)
                                                                 cTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGc                                                                                 <  6:267031/149‑1 (MQ=255)
                                                                   gTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGccc                                                                               >  1:3148/1‑149 (MQ=255)
                                                                        ccACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGAcc                                                                          <  4:61960/149‑1 (MQ=255)
                                                                            tGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGt                                                                      >  1:256518/1‑149 (MQ=255)
                                                                              gCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCTGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCATGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTc                                                                    <  6:287322/149‑1 (MQ=255)
                                                                              gCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGtt                                                                     <  5:285123/148‑1 (MQ=255)
                                                                                     ccAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGGGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCt                                                             >  2:257223/1‑149 (MQ=255)
                                                                                      cagcatCGACTGCTGGTCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTTAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCtt                                                            <  4:178118/149‑1 (MQ=255)
                                                                                                 gctgGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGcc                                                 >  8:111269/1‑149 (MQ=255)
                                                                                                   tgGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCggg                                                   <  3:30120/145‑1 (MQ=255)
                                                                                                     ggCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGtt                                                                                                                    <  6:85057/78‑1 (MQ=255)
                                                                                                     ggCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGtt                                                                                                                    >  5:85057/1‑78 (MQ=255)
                                                                                                       gaTGACCATGGCGCCGGCTGACCTGGTTGCCCTGCTTGTGGCCTGGCTGAGGCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCATGATGCCCTGACCGAGTTCGACACCTTGGTGCAGGGCCGCTTcc                                           <  6:104937/148‑1 (MQ=255)
                                                                                                                        cTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTGATGGc                          >  1:300101/1‑149 (MQ=255)
                                                                                                                         tGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCTGCTTCCAGACCTTGCGTGATGGCt                         >  6:296166/1‑149 (MQ=255)
                                                                                                                          gCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTc                                                                    <  8:90262/105‑1 (MQ=255)
                                                                                                                          gCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTc                                                                    >  7:90262/1‑105 (MQ=255)
                                                                                                                                  tGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTGATGGCTCGCGGGTaa                <  2:3148/149‑1 (MQ=255)
                                                                                                                                   gCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTGATGGCTCGCGGGTaa                <  3:106787/148‑1 (MQ=255)
                                                                                                                                     ccTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGACCCCCTGGGCGTTGCCCAGGTGCAGCAGATAATCAGCCAGCAGGATGCCCTGACCGAGTTCGCCACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTGATGGATCGCGGGTAAcc              >  5:7782/1‑148 (MQ=255)
                                                                                                                                        caggggggCCAGGCTCAGGCTCAGCCAGGCCACCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTGATGGCTCGCGGGTAACCtata          >  2:231075/7‑149 (MQ=255)
                                                                                                                                               gCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTg                               >  2:163181/1‑121 (MQ=255)
                                                                                                                                               gCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTg                               <  1:163181/121‑1 (MQ=255)
                                                                                                                                                ccTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTGATGGCTCGCGGGTAACCTATACCGAGCaa  <  3:315423/149‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                                  
TGGGGCTGTTCCTCGGCATCCTCCTGGCTTACGGGCGCCTGTACCTGGAAAGCGAGATGACCGTGCTGTCGGCCACTGGCATGAGCCAGCAGCGCCTGCTGGGCATGACCATGGCGCCGGCTGCCCTGGTTGCCCTGCTGGTGGCCTGGCTGAGCCTGAGCCTGGCCCCCCTGGGCGTTGCCCAGGTGCAGCAGATCATCAGCCAGCAGGATGCCCTGACCGAGTTCGACACCTTGGTGCCGGGCCGCTTCCAGACCTTGCGTGATGGCTCGCGGGTAACCTATACCGAGCAA  >  NC_002947/1120756‑1121048

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: ‑