Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,987,443 G→A 8.5% S233N (AGT→AAT)  PP_1778 → lipopolysaccharide ABC transporter permease

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,987,4430GA 8.5% 127.7 / 2.9 47S233N (AGT→AAT) PP_1778lipopolysaccharide ABC transporter permease
Reads supporting (aligned to +/- strand):  ref base G (22/21);  new base A (2/2);  total (24/23)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGTTGTTCTGGTTTACCCCAATCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTGGGCAAAGCCTACAAAACGTACCGTTCG  >  NC_002947/1987302‑1987590
                                                                                                                                             |                                                                                                                                                   
tgttgtTCTGGTTTACCCCAATCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCg                                                                                                                                              <  2:73745/149‑1 (MQ=255)
     ttCTGGTTTACCCCAATCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGt                                                                                                                                         >  1:215375/1‑149 (MQ=255)
     ttCTGGTTTACCCCAATCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGATTGt                                                                                                                                         >  6:215763/1‑149 (MQ=255)
        tGGTTTACCCCAATCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGATTGTCAt                                                                                                                                      <  5:215763/149‑1 (MQ=255)
               ccccAATCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCgg                                                                                                                                >  1:229203/1‑148 (MQ=255)
               ccccAATCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCgg                                                                                                                                <  1:46539/148‑1 (MQ=255)
                   aaTCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGAttt                                                                                                                           >  5:318898/1‑149 (MQ=255)
                       gTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCtt                                                                                                                       <  2:229203/149‑1 (MQ=255)
                         ttACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGACTCAAATCAGGCGCttta                                                                                                                                         >  6:253223/1‑127 (MQ=255)
                         ttACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGACTCAAATCAGGCGCttta                                                                                                                                         <  5:253223/129‑3 (MQ=255)
                                gTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCtgtt                                                                                                              <  8:252272/149‑1 (MQ=255)
                                                  cacCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGcctgttcct                                                                                            <  2:215375/149‑1 (MQ=255)
                                                     cTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGcctgttcctgtt                                                                                         >  1:91434/1‑149 (MQ=255)
                                                           gCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTtcgtcg                                                                                   >  3:175542/1‑149 (MQ=255)
                                                            ccACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCgg                                                                                  >  5:73293/1‑149 (MQ=255)
                                                             cACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGt                                                                                 <  4:175542/149‑1 (MQ=255)
                                                             cACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGt                                                                                 >  6:177024/1‑149 (MQ=255)
                                                                              ccATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAAtggtg                                                                <  6:73293/149‑1 (MQ=255)
                                                                               cATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAAtggtgg                                                               <  1:250627/149‑1 (MQ=255)
                                                                                  gTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATg                                                            >  1:83401/1‑149 (MQ=255)
                                                                                     tCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTAc                                                         <  3:103308/149‑1 (MQ=255)
                                                                                       ccATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAGGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTa                                                       >  7:250178/1‑149 (MQ=255)
                                                                                               aCTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGcctgttcctgt                                                                                          >  6:238913/1‑106 (MQ=255)
                                                                                               aCTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGcctgttcctgt                                                                                          <  5:238913/106‑1 (MQ=255)
                                                                                                 tGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCtttt                                             <  2:83401/149‑1 (MQ=255)
                                                                                                      aTCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAAtggtg                                                                <  4:207997/125‑1 (MQ=255)
                                                                                                      aTCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAAtggtg                                                                >  3:207997/1‑125 (MQ=255)
                                                                                                                aCTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGAtgt                              >  4:159132/1‑149 (MQ=255)
                                                                                                                 cTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGAtgtg                             <  2:91434/149‑1 (MQ=255)
                                                                                                                  tCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAAtg                                                                   <  3:73339/110‑1 (MQ=255)
                                                                                                                  tCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAAtg                                                                   >  4:73339/1‑110 (MQ=255)
                                                                                                                  tCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACt                                                        >  8:109023/1‑121 (MQ=255)
                                                                                                                    cTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTg                                                                                                                     >  8:199562/1‑58 (MQ=255)
                                                                                                                    cTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTg                                                                                                                     <  7:199562/58‑1 (MQ=255)
                                                                                                                       tACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAg                                                   >  1:99438/1‑121 (MQ=255)
                                                                                                                       tACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAg                                                   <  2:99438/121‑1 (MQ=255)
                                                                                                                            tAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTGGGCAAAGCCTa                  >  4:42272/1‑149 (MQ=255)
                                                                                                                               accgcCTGACTCAAATCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTggg                           <  6:40374/135‑1 (MQ=255)
                                                                                                                               accgcCTGACTCAAATCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTggg                           >  5:40374/3‑137 (MQ=255)
                                                                                                                                    cTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTGGGCAAAGCCTACAAAACGt          <  3:42272/149‑1 (MQ=255)
                                                                                                                                       aTTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCtgtt                                                                                                              >  6:249039/1‑46 (MQ=255)
                                                                                                                                       aTTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCtgtt                                                                                                              <  5:249039/46‑1 (MQ=255)
                                                                                                                                       aTTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGa                                           <  6:13999/113‑1 (MQ=255)
                                                                                                                                       aTTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCATGAAATGGTGGATGTACTATGAGCCTTTTGa                                           >  5:13999/1‑113 (MQ=255)
                                                                                                                                        tttGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTGGGCAAAGCCTACAAAACGTACCg      >  5:307024/1‑149 (MQ=255)
                                                                                                                                            aGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTGGGCAAAGCCTACAAAACGTACCGTTCg  >  2:279753/1‑149 (MQ=255)
                                                                                                                                            aGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGGTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTGGGCAAAGCCTACAAAACGTACCGTTCg  <  6:318898/149‑1 (MQ=255)
                                                                                                                                             |                                                                                                                                                   
TGTTGTTCTGGTTTACCCCAATCGTTTACATGGTCAATGTGATACCTGAACACCTTCGGGCCACCCTTAGTTTTAACCCCATGTATCCCATTGTTACTGCCTATCACGACGTACTCCTGTACGCTAAAGCGCCTGATTTGAGTCAGGCGGTTGTCATGACCGGGATTTCCTTTGGTCTGTTGTTGCTTGGCCTGTTCCTGTTTCGTCGGTCTGTGCCTGAAATGGTGGATGTACTATGAGCCTTTTGAGTGTCAGTGATGTGGGCAAAGCCTACAAAACGTACCGTTCG  >  NC_002947/1987302‑1987590

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑