Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 5,610,450 G→A 100% S39L (TCG→TTG)  PP_4929 ← LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029475,610,4500GA100.0% 84.7 / NA 26S39L (TCG→TTG) PP_4929LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (9/17);  total (9/17)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TGGCGTAACAATTCGCGGGCGTCCTCCAGCAAGGCGCTGCCGTTTTCAGTCAATTTCGGTTGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTAC  >  NC_002947/5610315‑5610586
                                                                                                                                       |                                                                                                                                        
tGGCGTAACAATTCGCGGGCGTCCTCCAGCAAGGCGCTGCCGTTTTCAGTCAATTTCGGTTGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTtgtgt                                                                                                                            <  1:63927/150‑2 (MQ=255)
                       ctccAGCAAGGCGCTGCCGTTTTCAGTCAATTTCGGTTGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGaa                                                                                                     >  1:196314/1‑150 (MQ=255)
                        tccAGCAAGGCGCTGCCGTTTTCAGTCAATTTCGGTTGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGTTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAAc                                                                                                    >  1:298991/1‑150 (MQ=255)
                                                    aTTTCGGTTGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAAc                                                                                                    >  2:183548/1‑122 (MQ=255)
                                                    aTTTCGGTTGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAAc                                                                                                    <  1:183548/122‑1 (MQ=255)
                                                           ttGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAg                                                                         >  2:615499/1‑142 (MQ=255)
                                                           ttGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAg                                                                         <  1:615499/142‑1 (MQ=255)
                                                             gccggccgCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAAtt                                                               <  1:577298/150‑1 (MQ=255)
                                                                   cgCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCaa                                                         <  2:73047/150‑1 (MQ=255)
                                                                   cgCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCaa                                                         <  1:400211/150‑1 (MQ=255)
                                                                   cgCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCaa                                                         <  1:422339/150‑1 (MQ=255)
                                                                      tgctgcGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGt                                                      >  1:595859/1‑150 (MQ=255)
                                                                              tCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTccctggc                                              <  2:238275/150‑6 (MQ=255)
                                                                                          aCCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTCCCACTGCTCGGCCATCAAc                                  <  1:417819/150‑1 (MQ=255)
                                                                                                 ggTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTAtctc                           >  2:198710/1‑150 (MQ=255)
                                                                                                    cGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCa                        <  1:456427/150‑1 (MQ=255)
                                                                                                    cGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCa                        <  2:407872/150‑1 (MQ=255)
                                                                                                       tttCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAAtt                                                               >  2:261457/1‑108 (MQ=255)
                                                                                                       tttCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTcc                          <  1:356416/145‑1 (MQ=255)
                                                                                                       tttCGAGCAGCGCGATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTcc                          >  2:356416/1‑145 (MQ=255)
                                                                                                       tttCGAGCAGCGCGATGGCACTGCTGATCCCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAAtt                                                               <  1:261457/108‑1 (MQ=255)
                                                                                                                  gcgATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAAt          <  2:196314/150‑1 (MQ=255)
                                                                                                                    gATGGCACTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGa        <  1:7418/150‑1 (MQ=255)
                                                                                                                          aCTGCTGATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCACCCTATCTCCCATATCGATAGGTAATGACTTTAc  <  2:595859/150‑1 (MQ=255)
                                                                                                                               tgATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGa        <  2:218247/139‑1 (MQ=255)
                                                                                                                               tgATCGCCAACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGa        >  1:218247/1‑139 (MQ=255)
                                                                                                                                       |                                                                                                                                        
TGGCGTAACAATTCGCGGGCGTCCTCCAGCAAGGCGCTGCCGTTTTCAGTCAATTTCGGTTGCCGGCCGCTGCTGCGCTCGAACAGAGTGACCCCCAGGTCGGTTTCGAGCAGCGCGATGGCACTGCTGATCGCCGACTGGGCTTTGTGCTGCTCACGTGCCACCGCGGAGAACGAGCGCAGTTCTGCAACGCGCAGAAAGGTACGCAATTGTTCAAGGTTCCACTGCTCGGCCATCAACCTATCTCCCATATCGATAGGTAATGACTTTAC  >  NC_002947/5610315‑5610586

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑