Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,942,375 T→A 13.6% intergenic (+53/‑152) betX → / → yjcH choline/betaine/carnitine ABC transporter substrate‑binding protein BetX/inner membrane protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,942,3750TA13.6% 80.7 / 7.1 37intergenic (+53/‑152)betX/yjcHcholine/betaine/carnitine ABC transporter substrate‑binding protein BetX/inner membrane protein
Reads supporting (aligned to +/- strand):  ref base T (19/13);  new base A (3/2);  total (22/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.50e-01

TGGCGATCCAGGAAGGGGCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGTTCCATCCCGTATCTGTGCTGCTAGGA  >  NC_002947/1942231‑1942518
                                                                                                                                                |                                                                                                                                                
tGGCGATCCAGGAAGGGGCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCgg                                                                                                                                              >  6:358583/1‑149 (MQ=255)
  gCGATCCAGGAAGGGGCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGt                                                                                                                                            >  1:49509/1‑149 (MQ=255)
   cGATCCAGGAAGGGGCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGtt                                                                                                                                           <  5:358583/149‑1 (MQ=255)
   cGATCCAGGAAGGGGCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGtt                                                                                                                                           >  3:195347/1‑149 (MQ=255)
     aTCCAGGAAGGGGCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTa                                                                                                                                         <  6:70837/149‑1 (MQ=255)
               gggCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCACCCGTAGGAGCGGGTTTA‑cc                                                                                                                                      >  8:64003/1‑141 (MQ=38)
               gggCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCACCCGTAGGAGCGGGTTTA‑cc                                                                                                                                      <  7:64003/141‑1 (MQ=38)
                 gCCAAGCCTGAAGCGGCCGCCATGGACTGGGTCGCCAAGTACCCTGATGGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCcg                                                                                                                                    <  6:68841/141‑1 (MQ=255)
                 gCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTAA‑CCcg                                                                                                                                    >  5:68841/1‑141 (MQ=255)
                   cAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCACCCGTAGGAGCGGGTTTA‑ccc                                                                                                                                     >  4:150302/1‑138 (MQ=38)
                   cAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCACCCGTAGGAGCGGGTTTA‑ccc                                                                                                                                     <  3:150302/138‑1 (MQ=38)
                          taaGCGGCGGCAATGGAGTGGGGCGCAATGAACCGTTTTGGTGTTATGGAGTGGATTGGCAATTAAAAGCCTTCCCGGGCAAATTTTTTTTCTTCGGGGGTAAACCCGCTCCTAGGGGTGGGGTTTTA‑CCCGCGAACGGGTCATCACt                                                                                                                    <  6:283137/147‑1 (MQ=255)
                              cGGCCGCCAAGGACGGGGTCGCCAAGCACCCTGATCGTGTCAAGGAGTGGACTGCCAAGTAAAAGCCTTCCAGGGCAAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGtt                                                                                                               <  5:133802/149‑1 (MQ=255)
                                       aGGACTGGGGCGCCAAGCACCTTGATCGTGTGAAGGAGTGGACTGGCAATTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGAAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCg                                                                                                      <  2:49509/149‑1 (MQ=255)
                                                           ccTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCt                                                                                   >  1:96418/1‑148 (MQ=255)
                                                                               gACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTg                                                              >  2:246051/1‑149 (MQ=255)
                                                                                  tGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCg                                                           >  1:317658/1‑149 (MQ=255)
                                                                                      aaGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCTTCTGGTTGGCGTCCa                                                       >  7:278877/1‑149 (MQ=255)
                                                                                      aaGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCa                                                       >  3:303588/1‑149 (MQ=255)
                                                                                                     aGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGCTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATaaa                                          >  3:183383/1‑147 (MQ=255)
                                                                                                        gCCATTGTTGTTTCTTCGGGGTTAAACCCGCTCCTCCGGGTGGGGTTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAg                                     <  2:317658/149‑1 (MQ=255)
                                                                                                         ccAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAgg                                    <  2:96418/149‑1 (MQ=255)
                                                                                                               ttttttCTTCGCTGTTAACCCCGCTCCTCGGGGTGGGGTTTAA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGtgtg                               <  8:51155/145‑1 (MQ=255)
                                                                                                                 gttTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGtgtg                               >  7:51155/1‑146 (MQ=255)
                                                                                                                 gttTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGt                            >  4:174903/1‑149 (MQ=255)
                                                                                                                  tttCTTCGCGGGTAAACCCGCTCCTACGGGTGCGTGTTTA‑CCCGCGAACGAGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGt                            <  4:195347/148‑1 (MQ=255)
                                                                                                                  tttCTTCGCGGGTAAACCCGCTCCGACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGTCTTAGGTCGTCTGGTTGGCGGCCATCGGCAGCATAAAGTAAGGGTGTggggt                           >  3:175156/1‑147 (MQ=255)
                                                                                                                           gggTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGAATAAAGTAAGGGAGTGGGTTCCAtgacg                   >  8:273968/1‑144 (MQ=255)
                                                                                                                            ggTAAACCCGCTCCTACGGGTGCGGGTTTANCCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGAGTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGgt                                  >  1:33082/1‑133 (MQ=255)
                                                                                                                            ggTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGgt                                  <  2:33082/132‑1 (MQ=255)
                                                                                                                            ggTAAACCCGCACCCGTAGGAGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAGGTAAGGGTGTGGGTTCCATCCCGt                  >  8:242829/1‑148 (MQ=38)
                                                                                                                                 aCCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGTTCCATCCCGTATCtgt            >  1:356214/1‑149 (MQ=255)
                                                                                                                                  cccGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGTTCCATCCCGTATCtgtg           >  2:57379/1‑149 (MQ=255)
                                                                                                                                   ccGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGTTCCATCCCGTATCTGtgc          <  3:174903/149‑1 (MQ=255)
                                                                                                                                         cTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGTTCCATCCCGTATCTGtgctgc       >  7:187265/1‑146 (MQ=255)
                                                                                                                                         cTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGTTCCATCCCGTATCTGTGCTGCTa     <  8:187265/148‑1 (MQ=255)
                                                                                                                                           aCGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAAGCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGTTCCATCCCGTATCTGTGCTGCTAGGa  >  1:258626/1‑149 (MQ=255)
                                                                                                                                                |                                                                                                                                                
TGGCGATCCAGGAAGGGGCCAAGCCTGAAGCGGCCGCCAAGGACTGGGTCGCCAAGCACCCTGATCGTGTGAAGGAGTGGACTGGCAAGTAAAAGCCTTCCAGGGCCAATGTTGTTTCTTCGCGGGTAAACCCGCTCCTACGGGTGCGGGTTTA‑CCCGCGAACGGGTCATCACTTTGTTACGCAATCGGTAAAACACCGTTGCATCTAAGACTAAGGTCGTCTGGTTGGCGTCCATCGGCAGCATAAAGTAAGGGTGTGGGTTCCATCCCGTATCTGTGCTGCTAGGA  >  NC_002947/1942231‑1942518

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: ‑