Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,887,144 C→T 7.8% R238H (CGC→CAC)  PP_3430 ← two‑component system sensor histidine kinase/response regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,887,1440CT 7.8% 147.5 / 2.3 51R238H (CGC→CAC) PP_3430two‑component system sensor histidine kinase/response regulator
Reads supporting (aligned to +/- strand):  ref base C (26/21);  new base T (2/2);  total (28/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.41e-01

AGGCGGATCTCCAGCTGCTCCGCGTGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCACCTGCTCACG  >  NC_002947/3887006‑3887283
                                                                                                                                          |                                                                                                                                           
aGGCGGATCTCCAGCTGCTCCGCGTGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGc                                                                                                                                   >  5:138338/1‑149 (MQ=255)
           cAGCTGCTCCGCGTGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTg                                                                                                                            <  3:300938/145‑1 (MQ=255)
             gctgctCCGCGTGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCa                                                                                                                      >  4:89279/1‑149 (MQ=255)
                   ccGCGTGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGt                                                                                                                >  6:312050/1‑149 (MQ=255)
                     gcgTGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGttt                                                                                                              >  2:50197/1‑149 (MQ=255)
                       gTGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTc                                                                                                             >  4:122990/1‑148 (MQ=255)
                        tGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCaa                                                                                                           <  5:312050/149‑1 (MQ=255)
                           cTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTc                                                                                                        >  8:20966/1‑149 (MQ=255)
                            tGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCt                                                                                                       >  1:279633/1‑149 (MQ=255)
                              cATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGtt                                                                                                               <  4:153940/139‑1 (MQ=255)
                              cATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGtt                                                                                                               >  3:153940/1‑139 (MQ=255)
                                ttGGAACAGCCCGGACACAGCCAATCGTACTTCGGTACGCTCTGTCGCGTGCACCAGCTCCATCACCGACAACGCCTGCACCTGCTCTAGTGTCCACCCCAGAATGCGGTACCAGGCCGGGTTTCCGCCAAGCAGTTTCAATACTggcg                                                                                                   >  7:90918/1‑147 (MQ=255)
                                 tGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGt                                                                                                  >  7:18897/1‑149 (MQ=255)
                                        gCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGcatc                                                                                           <  6:138338/149‑1 (MQ=255)
                                         cccGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGcatca                                                                                          <  7:20966/149‑1 (MQ=255)
                                            ggACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGcatcatca                                                                                       <  3:89279/149‑1 (MQ=255)
                                                acTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGt                                                                                                                >  7:254920/1‑120 (MQ=255)
                                                acTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGt                                                                                                                <  8:254920/120‑1 (MQ=255)
                                                   gCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTc                                                                                >  1:247375/1‑149 (MQ=255)
                                                    ccAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTcg                                                                               >  6:20529/1‑149 (MQ=255)
                                                       aTCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTcgcgc                                                                            <  1:50197/149‑1 (MQ=255)
                                                          gTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGa                                                                          <  5:20529/148‑1 (MQ=255)
                                                           tACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACa                                                                        <  8:18897/149‑1 (MQ=255)
                                                                      gCTCTGTCGGGTTCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGTGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAAc                                                             <  3:122990/149‑1 (MQ=255)
                                                                            tCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTggg                                                                                                    <  6:52402/104‑1 (MQ=255)
                                                                            tCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTggg                                                                                                    >  5:52402/1‑104 (MQ=255)
                                                                                          tCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGa                                                                          <  2:132722/116‑1 (MQ=255)
                                                                                                aCCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTACGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTgcg                                    >  4:62875/1‑148 (MQ=255)
                                                                                                    aCATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGTGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACAtgctg                                      >  8:154003/1‑142 (MQ=255)
                                                                                                    aCATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGTGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACAtgctg                                      <  7:149748/142‑1 (MQ=255)
                                                                                                    aCATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGTGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACAtgctg                                      <  7:154003/142‑1 (MQ=255)
                                                                                                    aCATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGTGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACAtgctg                                      >  8:149748/1‑142 (MQ=255)
                                                                                                      aTCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTg                             >  5:108982/1‑149 (MQ=255)
                                                                                                       tCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTgg                            <  6:108982/149‑1 (MQ=255)
                                                                                                                 cTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGc                  >  3:247056/1‑149 (MQ=255)
                                                                                                                         gtgtCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCAcc          >  7:190883/1‑149 (MQ=255)
                                                                                                                         gtgtCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCAcc          >  3:124657/1‑149 (MQ=255)
                                                                                                                         gtgtCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCAc           <  2:247375/148‑1 (MQ=255)
                                                                                                                         gtctCCAGCCAAGAATGCTTTACCAGGCAGGGGTGTCGCGATTCAGTTTAAATTCTGGGGTTAGGATTTTCATCGCTTCGCGCGACAGCAAGGTGTAATGCTCTCGATATGGCACATGGTTGTTAACCTTTCGTTCATAGctcttaac           <  8:90918/145‑5 (MQ=255)
                                                                                                                            tCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCAcc          <  6:156236/146‑1 (MQ=255)
                                                                                                                            tCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCAcc          >  5:156236/1‑146 (MQ=255)
                                                                                                                            tCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCACCTg        <  4:247056/148‑1 (MQ=255)
                                                                                                                            tCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCACCTg        <  2:279633/148‑1 (MQ=255)
                                                                                                                            tCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCACCTGc       >  3:234557/1‑149 (MQ=255)
                                                                                                                              cAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCACCTGCt      >  6:7655/1‑148 (MQ=255)
                                                                                                                                 cccAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTctcg                                                     >  2:308184/1‑98 (MQ=255)
                                                                                                                                 cccAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTctcg                                                     <  1:308184/98‑1 (MQ=255)
                                                                                                                                 cccAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCACCTGCTCACg  >  4:293187/1‑149 (MQ=255)
                                                                                                                                 cccAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCACCTGCTCACg  >  3:265404/1‑149 (MQ=255)
                                                                                                                                        tGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCaa                                 >  7:213690/1‑111 (MQ=255)
                                                                                                                                        tGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCaa                                 <  8:213690/111‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                           
AGGCGGATCTCCAGCTGCTCCGCGTGGCTGCATTGGAACAGCCCGGACACTGCCAATCGTACTTCGGTACGCTCTGTCGGGTGCACCAGCTCCATCACCGACATCGCCTGCACCTGCTCTTGTGTCCAGCCCAGAATGCGGTACCAGGCCGGGTTGGCGCCATGCAGTTTCAATTCTGGGGTGAGCATCATCATCGCTTCGCGCGACAGCAACCAGAACTGCTCTCGCTCGGCCACATGCTGCGCAACCTGGCGTTCAAAGCTCTGCACCTGCTCACG  >  NC_002947/3887006‑3887283

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑