Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,375,446 T→G 14.3% R30R (CGA→CGC)  PP_5637 ← hypothetical protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,375,4460TG14.3% 80.6 / 8.8 35R30R (CGA→CGC) PP_5637hypothetical protein
Reads supporting (aligned to +/- strand):  ref base T (16/14);  new base G (2/3);  total (18/17)
Fisher's exact test for biased strand distribution p-value = 6.58e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.88e-01

CATATAGCACGCCTTCGACCTCTTCTACCCCGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCGGCACCAATACTGTATA  >  NC_002947/4375307‑4375590
                                                                                                                                           |                                                                                                                                                
cATATAGCACGCCTTCGACCTCTTCTACCCCGTTGATGTGGATCCCGCGCTGGGCCATGCCGTTCACCTCCGCAGCGTGCAGCCGGGGTATAATGGCGGGCCCCGGCGTAGGGTTAAACCCCCCGGCCTGGGTCGCGACTCGACCCaga                                                                                                                                         <  6:218123/149‑1 (MQ=255)
cATAAAGCACGCGTTCCACCTCTTCTACCCGTTTGATTTTGTGGCCGCGCGGGGCCAGGCGTTTCCCCTTCGCTTGGTCCAGCGGGGGTATAATGTGGGGCCCCGGCTTTGGTTTAAACACCCCGGCCTGGGTCGCGACTCGACCCaga                                                                                                                                         <  2:164028/149‑1 (MQ=255)
 atatAGCACGCCTTCGACCTCTTCTACCCCGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCagag                                                                                                                                        >  4:293102/1‑149 (MQ=255)
    taGCACGCCTTCGACCTCTTCTACCCCGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGAGTCGCGACCCaggcctg                                                                                                                                     <  5:229595/149‑6 (MQ=255)
      gCACGCCTTCGACCTCTTCTACCCCGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGAGTCGCGACCCaggcctgg                                                                                                                                    <  1:57838/148‑7 (MQ=255)
           ccTTCGACCACTTCTCCCCCGTTGAGGTGGATGCCGCGCTGGGCCAGGCCGTTGACCTCCGCATCGGGCAGCCGGGGGATAATGTCGGGCCCTGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCtgtg                                                                                                                              <  4:11687/149‑1 (MQ=255)
           ccTTCGACAGCTGATACCTCGTTGATGTTGTTGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGTGTATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCTGGCCTGGGGCGCGACTCGACCCAGAGGCTCGCtgtg                                                                                                                              <  6:201261/149‑1 (MQ=255)
                           ccccGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCagag                                                                                                                                        <  1:90169/123‑1 (MQ=255)
                           ccccGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCagag                                                                                                                                        >  2:90169/1‑123 (MQ=255)
                            cccGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGc                                                                                                                      <  1:118017/140‑1 (MQ=255)
                            cccGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGc                                                                                                                      >  2:118017/1‑140 (MQ=255)
                                         atgCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAg                                                                                                <  3:97242/149‑1 (MQ=255)
                                          tgCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAg                                                                                                <  3:293102/148‑1 (MQ=255)
                                           gCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAggg                                                                                              >  1:134283/1‑149 (MQ=255)
                                                        aTGCGGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCg                                                                                 <  7:248338/149‑1 (MQ=255)
                                                           ccGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCTTAGGGTTAAACACCAAGGCCTGTGTCGCGACTAGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAg                                                                              <  3:31292/149‑1 (MQ=255)
                                                              ttGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCg                                                                           >  2:25810/1‑149 (MQ=255)
                                                                         aTCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGc                                                                 >  8:236766/1‑148 (MQ=255)
                                                                                     ggggATAAGGTCGGGCCCAGGGGTAGGGTTAAACACCCAGGCCGGGGTGGCGAGTCGCCCCAGTGGCTCGCGGTGATGGTCGCCAATGTGGACGTCTGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCAt                                                    <  1:248095/149‑1 (MQ=255)
                                                                                                               ggTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCa                                                          <  4:276572/117‑1 (MQ=255)
                                                                                                               ggTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCa                                                          >  3:276572/1‑117 (MQ=255)
                                                                                                                gTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAgaaggaag                          >  6:129747/1‑148 (MQ=255)
                                                                                                                 ttAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGt                                                                                <  3:125508/93‑1 (MQ=255)
                                                                                                                 ttAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGt                                                                                >  4:125508/1‑93 (MQ=255)
                                                                                                                 ttAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTa                        >  6:148276/1‑149 (MQ=255)
                                                                                                                 ttAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTACGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTa                        >  2:63289/1‑149 (MQ=255)
                                                                                                                       acCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCg                  >  8:251584/1‑149 (MQ=255)
                                                                                                                        cccAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGAACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCgg                 >  7:35676/1‑149 (MQ=255)
                                                                                                                           aGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCGGCAc              >  6:110310/1‑149 (MQ=255)
                                                                                                                           aGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCGGCAc              >  6:329542/1‑149 (MQ=255)
                                                                                                                             ctcTGGGTCGAGTCGCGACCCAGGGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAg                                                                    <  1:150955/91‑1 (MQ=38)
                                                                                                                             ctcTGGGTCGAGTCGCGACCCAGGGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAg                                                                    >  2:150955/3‑93 (MQ=38)
                                                                                                                             ctcTGGGTCGAGTCGCGACCCAGGGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCGGCAcc             >  7:304843/3‑148 (MQ=255)
                                                                                                                                  ggTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGAACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCGGCACCAATa         <  8:35676/147‑1 (MQ=255)
                                                                                                                                    tCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCGGCACCAATACTg      >  6:306113/1‑148 (MQ=255)
                                                                                                                                           tCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCGGCACCAATACTGtata  >  1:288271/1‑145 (MQ=255)
                                                                                                                                           |                                                                                                                                                
CATATAGCACGCCTTCGACCTCTTCTACCCCGTTGATGTTGATGCCGAGCTGGGCCATGCCGTTGACCTTCGCATCGTGCAGCCGGGGGATAATGTCGGGCCCAGGCGTAGGGTTAAACACCCAGGCCTGGGTCGCGACTCGACCCAGAGGCTCGCTGTGATGGTCGCCAATGTGGACGTCCGCGCGGAGGGGCTGGACTTTCCGTAGGCGGTCTGAGGGCAAGGCCACGCCATGCTCGCGGCGTCGAACGAGAAGGAAGTACATGCGGCACCAATACTGTATA  >  NC_002947/4375307‑4375590

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑