Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,171,856 T→A 14.3% E104V (GAG→GTG)  PP_3670 ← DMT superfamily permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,171,8560TA14.3% 67.9 / 5.7 28E104V (GAG→GTG) PP_3670DMT superfamily permease
Reads supporting (aligned to +/- strand):  ref base T (10/14);  new base A (2/2);  total (12/16)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.51e-01

CGCCAGGGTGCACCACCACCAGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCAGACTTGGGCAGGAAGATGCCGGCCATCAGCAACGTG  >  NC_002947/4171716‑4172005
                                                                                                                                            |                                                                                                                                                     
cGCCAGGGTGCACCACCACCAGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTg                                                                                                                                              >  2:89833/1‑150 (MQ=255)
         gCACCACCACCAGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTAtt                                                                                                                                     <  1:143751/150‑1 (MQ=255)
            ccaccaccaGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGAGGCCACGGccgtcaa                                                                                                                                             >  2:414350/1‑134 (MQ=255)
            ccaccaccaGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGAGGCCACGGccgtcaa                                                                                                                                             <  1:414350/139‑6 (MQ=255)
             caccaccaGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCCCTGTGACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTAGCCTCGGCCAATACAAGGTATTGCaa                                                                                                                                 >  2:206471/1‑150 (MQ=255)
             caccaccaGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTTTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCaa                                                                                                                                 <  1:233827/150‑1 (MQ=255)
               ccaccaGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGc                                                                                                                               <  1:103427/150‑1 (MQ=255)
                         gCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTc                                                                                                                          <  2:98347/145‑1 (MQ=255)
                         gCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTc                                                                                                                          >  1:98347/1‑145 (MQ=255)
                              tAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAAcagca                                                                                                                <  2:283029/150‑1 (MQ=255)
                                                     cacTGCCCCCCTGTCACTCGCGGTTTGAGAAGGGGCGCCGCGAGCGCGGTGACCAAGATCGGGGCAAGGATGTTGAGGGCCGTGGCCTCGGACAGTGGCAGGTATTGCAAGCCGGTGGTGAACAGCCGGCTGGTGTTCAGCAGGCTCAgg                                                                                         <  2:48883/150‑1 (MQ=255)
                                                              aCTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAg                                                                                >  2:270698/1‑150 (MQ=255)
                                                                     cTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCa                                                                         >  1:300347/1‑150 (MQ=255)
                                                                      tCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCaa                                                                        >  1:141958/1‑150 (MQ=255)
                                                                          tctTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATAcc                                                                    <  1:89833/150‑1 (MQ=255)
                                                                                                gcgcGGTGACCAGCATCGGTGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCCGCAATAGCGGCCGGCGGGTGCGCAACACGt                                              <  2:368511/150‑1 (MQ=255)
                                                                                                 cgcgGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGtt                                             <  2:141958/150‑1 (MQ=255)
                                                                                                        aCCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCa                                      <  1:270698/150‑1 (MQ=255)
                                                                                                        aCCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCa                                      <  1:224304/150‑1 (MQ=255)
                                                                                                              aCCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGa                                                                                                                      <  1:291850/64‑1 (MQ=255)
                                                                                                              aCCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGa                                                                                                                      >  2:291850/1‑64 (MQ=255)
                                                                                                                            gTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCAGACTTGGGCAGGAAGATGcc                  <  1:206471/150‑1 (MQ=255)
                                                                                                                              tGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGtt                                             <  1:320233/121‑1 (MQ=255)
                                                                                                                              tGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGtt                                             >  2:320233/1‑121 (MQ=255)
                                                                                                                                ctggCCGAGGCCACGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCAGACTTgg                               <  2:19822/131‑1 (MQ=255)
                                                                                                                                ctggCCGAGGCCACGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCAGACTTgg                               >  1:19822/3‑133 (MQ=255)
                                                                                                                                     cGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCAGACTTGGGCAGGAAGATGCCGGCCATCAg         >  2:392187/1‑150 (MQ=255)
                                                                                                                                           cTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCAGACTTGGGCAGGAAGATGCCGGCCATCAGCAACgt   >  1:396419/1‑150 (MQ=255)
                                                                                                                                            tCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCAGAGCTGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCAGACTTGGGCAGGAAGATGCCGGCCATCAGCAACgtg  >  1:357653/1‑150 (MQ=255)
                                                                                                                                            |                                                                                                                                                     
CGCCAGGGTGCACCACCACCAGCACGCCGATAAAGCCCATCACCACCGCCACCCACTGCCCCACTGTCACTCGCTCTTTGAGCAGCGGCGCCGACAGCGCGGTGACCAGCACCGGGGCAAGGAAGTTGACGGCCGTGGCCTCGGCCAGTGGCAGGTATTGCAAGCCGGTCGTGAACAGCAGGCTGGTGCTCAGCAGGCTCAGGGCCCGCAAGGTCTGCAATACCGGCCGGCGGGTGCGCAACACGTTGAGCCCAGACTTGGGCAGGAAGATGCCGGCCATCAGCAACGTG  >  NC_002947/4171716‑4172005

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: ‑