Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,623,312 A→T 19.2% H159Q (CAT→CAA)  PP_4941 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,623,3120AT19.2% 89.7 / 18.7 43H159Q (CAT→CAA) PP_4941hypothetical protein
Reads supporting (aligned to +/- strand):  ref base A (17/17);  new base T (3/5);  total (21/22)
Fisher's exact test for biased strand distribution p-value = 7.00e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.26e-01

CACCACCCAGCTTTCGTCGGCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCCAGCAGCTCGACCCGAGGGTCGAGAAAGCG  >  NC_002947/5623165‑5623461
                                                                                                                                                     |                                                                                                                                                     
caccacCCAGCTTTCGTCGGCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATg                                                                                                                                                     <  2:118395/150‑1 (MQ=255)
 accaccCAGCTTTCGTCGGCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATgt                                                                                                                                                    >  2:691357/1‑149 (MQ=255)
   caccCAGCTTTCGTCGGCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCATTgccg                                                                                                                                                  >  1:236840/1‑150 (MQ=255)
   caccCAGCTTTCGTCGGCCCGGCTGTACAAACCATAAGCGGCCAACTCGGCGGCATCGGCATGTGGCGCGAGCACCACCCATCGAACCCGCTTCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATgccg                                                                                                                                                  >  1:778956/1‑150 (MQ=255)
           tttCGTCGGCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCATTgccggctgcagg                                                                                                                                          <  2:236840/150‑7 (MQ=255)
           tttCGTCGGCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCa                                                                                                                                          <  2:763334/150‑1 (MQ=255)
              cgtcgGCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCTGCGCGGCCGGCATTgccggctgcaggg                                                                                                                                         <  1:600271/150‑8 (MQ=255)
                  ggCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGTCCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCaa                                                                                                                                   <  1:188227/150‑1 (MQ=255)
                  ggCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGTCGGCCGCGCAGTCGCaa                                                                                                                                   <  1:691357/150‑1 (MQ=255)
                         cTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCg                                                                                                                            <  2:754841/150‑1 (MQ=255)
                            tACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCATTgccggctgca                                                                                                                                            >  1:710244/1‑127 (MQ=255)
                            tACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGACGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCATTGCCGGCtgca                                                                                                                                            <  2:710244/131‑2 (MQ=255)
                               aaaCCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCTGCCGCGCAGTCGCAACGTACCGGCCTGc                                                                                                                      >  2:640383/1‑150 (MQ=255)
                                 aCCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCGGCCGGCATTgccggctgcagg                                                                                                                                          >  1:319022/1‑122 (MQ=255)
                                 aCCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCGGCCGGCATTgccggctgcagg                                                                                                                                          <  2:319022/128‑7 (MQ=255)
                                 aCCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCaa                                                                                                                                                       >  1:396147/1‑115 (MQ=255)
                                 aCCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCaa                                                                                                                                                       <  2:396147/115‑1 (MQ=255)
                                    aTACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCCCCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGCCCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTgg                                                                                                                 <  1:436398/150‑1 (MQ=255)
                                     tACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGgc                                                                                                                <  2:549228/150‑1 (MQ=255)
                                        gcgGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGTCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCgca                                                                                                             >  1:581849/1‑150 (MQ=255)
                                              aaCTCGGCGTCATCGGCATGTGGAGCGAACCCCATCACACGGAGCCGGTGCAGAGCGACCAAGGGGGTTATACACAGGCGCAACTGAGGCT‑‑GCGGCCGACAGGGGAGGCAGGGCAGTCGCAACGTAACGGCCTGCAGTGGCCTAGCAGGa                                                                                                       >  2:124752/1‑150 (MQ=255)
                                                     cGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCa                                                                                                <  2:77033/150‑1 (MQ=255)
                                                           cGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGTCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGttta                                                                                          <  2:493459/150‑3 (MQ=255)
                                                            ggCATGTGGCGCGATCACCCTCCCCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAg                                                                                         <  2:581849/150‑1 (MQ=255)
                                                                   ggCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAgcgc                                                                                  >  1:480648/1‑150 (MQ=255)
                                                                            accatcaccCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCg                                                                         >  2:790437/1‑150 (MQ=255)
                                                                              catcaccCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGAc                                                                       >  1:18517/1‑150 (MQ=255)
                                                                                    ccGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACg                                                                 >  2:87930/1‑150 (MQ=255)
                                                                                            gcTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTAc                                                                                                                              >  1:90766/1‑81 (MQ=255)
                                                                                            gcTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTAc                                                                                                                              <  2:90766/81‑1 (MQ=255)
                                                                                                    tCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGa                                                 >  1:151234/1‑150 (MQ=255)
                                                                                                      gACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATc                                               >  2:333570/1‑150 (MQ=255)
                                                                                                      gACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATc                                               >  1:485302/1‑150 (MQ=255)
                                                                                                           aGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCTGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCt                                          <  2:421818/150‑1 (MQ=255)
                                                                                                               ggTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTc                                      <  2:169063/150‑1 (MQ=255)
                                                                                                                 ttATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCgc                                    >  1:605484/1‑150 (MQ=255)
                                                                                                                       acaGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCgccagcca                              <  2:605484/150‑1 (MQ=255)
                                                                                                                       acaGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCgccagcca                              >  1:226521/1‑150 (MQ=255)
                                                                                                                       acaGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCgcca                                  >  1:199201/1‑146 (MQ=255)
                                                                                                                       acaGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCgcca                                  <  2:199201/146‑1 (MQ=255)
                                                                                                                          ggCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCCCGGCCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCcagca                           <  1:640383/150‑1 (MQ=255)
                                                                                                                                  ggACTCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTCCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCCAGCAGCTCGAcc                   >  1:619009/2‑150 (MQ=255)
                                                                                                                                   gACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCCAGCAGCTCGAccc                  >  2:136707/1‑150 (MQ=255)
                                                                                                                                           gcggCCGGCATTGCCGGCTGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCCAGCAGCTCGACCCGAGGGt            <  1:370981/147‑1 (MQ=255)
                                                                                                                                              gCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCCAGCAGCTCGACCCGAGGGTCga         <  1:333570/150‑1 (MQ=255)
                                                                                                                                               ccgagaaTGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGGTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCCAGCAGCTCGACCCTCGGGTCgag        <  1:124752/145‑1 (MQ=255)
                                                                                                                                                     aTGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCCAGCAGCTCGACCCTCGGGTCgagctgctg  <  1:87930/150‑7 (MQ=255)
                                                                                                                                                     |                                                                                                                                                     
CACCACCCAGCTTTCGTCGGCCCGGCTGTACAAACCATACGCGGCCAACTCGGCGTCATCGGCATGTGGCGCGATCACCATCACCCGGCGCCGCTGCAGCTCGACCGAGGGGGTTATCCACAGGCGCAACTGACCCT‑‑GCAGCCGGCAATGCCGGCCGCGCAGTCGCAACGTACCGGCCTGCAGTGGCGCAGCAAGACCCGTCAGGTTAAGGAAGCGCACGCCATCGACGCCACGCTCGAACGCTTGCCGATCGGCCTGTTCGCCAGCCAGCAGCTCGACCCGAGGGTCGAGAAAGCG  >  NC_002947/5623165‑5623461

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑