Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,240,291 C→A 13.3% A15S (GCT→TCT)  PP_3717 ← LuxR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,240,2910CA13.3% 76.9 / 3.4 30A15S (GCT→TCT) PP_3717LuxR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (11/15);  new base A (2/2);  total (13/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.74e-01

GGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTGGCGCAGGGTCTCGACGATCTCGTCCACCTGCGCATGGGTGATGATC  >  NC_002947/4240148‑4240435
                                                                                                                                               |                                                                                                                                                
ggCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCa                                                                                                                                            <  2:180777/150‑1 (MQ=255)
   aGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCACATTGTGAGGGTACGCGGGGTATCGGGAGAGGCTTGGGTCATGCCCGGCAGTCTAGCCTGCTAGGc                                                                                                                                         <  2:482674/150‑1 (MQ=255)
    gCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCACCGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCAGGGAATCGGGACAGGCCTCGGTCATGCCCGGCAGTCGAGCCTGCCAGGCa                                                                                                                                        >  2:437621/1‑150 (MQ=255)
     cGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGGTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCAc                                                                                                                                       <  1:535532/150‑1 (MQ=255)
     cGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCAc                                                                                                                                       <  1:145871/150‑1 (MQ=255)
     cGGCCACATACCCCAGAGTCTGGCGTTTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCTGGCAGGCTAGACTGCCGGGCat                                                                                                                                       <  2:446468/150‑2 (MQ=255)
                  cAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGc                                                                                                                          >  2:196196/1‑150 (MQ=255)
                             gggTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCa                                                                                                               >  1:117798/1‑150 (MQ=255)
                                       aTGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCGTGCCTGGCAGGCTAGACTGCCGGGCatga                                                                                                                                     >  1:478583/1‑115 (MQ=38)
                                       aTGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCGTGCCTGGCAGGCTAGACTGCCGGGCatga                                                                                                                                     <  2:478583/118‑4 (MQ=38)
                                        tGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGc                                                                                                    <  2:103845/150‑1 (MQ=255)
                                         gggCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGcc                                                                                                   <  1:196196/150‑1 (MQ=255)
                                                         cAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTAGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAAGTTCATCGGCCTTGGTACAGGCCAAgc                                                                                   <  1:16354/150‑1 (MQ=255)
                                                               cACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGc                                                                                                                                                  <  1:464883/81‑1 (MQ=255)
                                                               cACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGc                                                                                                                                                  >  2:464883/1‑81 (MQ=255)
                                                                      cACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCAc                                                                      >  1:313011/1‑150 (MQ=255)
                                                                       aCTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCAcg                                                                     >  1:367751/1‑150 (MQ=255)
                                                                            tgcAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCgg                                                                <  1:560960/150‑1 (MQ=255)
                                                                            tgcAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCgg                                                                >  1:554566/1‑150 (MQ=255)
                                                                                    gcCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAatg                                                        <  2:313011/150‑1 (MQ=255)
                                                                                      ccATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAatgat                                                      <  2:117798/150‑1 (MQ=255)
                                                                                            tgAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCCTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTg                                                >  2:165198/1‑150 (MQ=255)
                                                                                                     gCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCcgc                                                                                                                                 >  1:190406/1‑60 (MQ=255)
                                                                                                     gCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCcgc                                                                                                                                 <  2:190406/60‑1 (MQ=255)
                                                                                                                             tCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGa                                                                            >  2:456437/1‑89 (MQ=255)
                                                                                                                             tCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGa                                                                            <  1:456437/89‑1 (MQ=255)
                                                                                                                             tCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTGGCGCAGGGTCTCGACGATCTCGTCCACCTgcgc               >  1:124605/1‑150 (MQ=255)
                                                                                                                                   ctggCAGGCTAGACTGCCGGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTGGCGCAGGGTCTCGACGATCTCGTCCACCTGCGCATGGGt         >  1:130753/3‑150 (MQ=255)
                                                                                                                                   ccGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCCTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTGGCGCAGGGTCTCGACGATCTCGTCCACCTGCGCATGGGt         <  1:165198/150‑1 (MQ=255)
                                                                                                                                    cGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTGGCGCAGGGTCTCGACGATCTCGTCCACCTGCGCATGGGtg        >  1:55133/1‑150 (MQ=255)
                                                                                                                                         gTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTGGCGCAGGGTCTCGACGATCTCGTCCACCTGCGCATGGGTgatgat   <  2:367751/150‑1 (MQ=255)
                                                                                                                                          tCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTGGCGCAGGGTCTCGACGATCTCGTCCACCTGCGCATGGGTGATGATc  <  2:554566/150‑1 (MQ=255)
                                                                                                                                               |                                                                                                                                                
GGCAGCGGCCACATACTCCAGCGCCTCGGGGGTTTCACCATGGGCCAGGGCGCGCTGCAACGCCACGTGCCACTGCTGCAGCGCGCCCATTGTGAGGGTAAGCGGGGTATCGGGAGAGGCCTGGGTCATGCCCGGCAGTCTAGCCTGCCAGGCACGCCCGCGCACAGCCCTTTGCGCCAGGTTCATCGGCCTTGGTACAGGCCAAGCGCCGTGAGTTCACGCGCGGTCTCAATGATGCACTGGCGCAGGGTCTCGACGATCTCGTCCACCTGCGCATGGGTGATGATC  >  NC_002947/4240148‑4240435

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: ‑