Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,900,784 C→T 11.6% intergenic (‑112/‑178) PP_2553 ← / → quiC MFS transporter/3‑dehydroshikimate dehydratase

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,900,7840CT11.6% 109.0 / 5.7 43intergenic (‑112/‑178)PP_2553/quiCMFS transporter/3‑dehydroshikimate dehydratase
Reads supporting (aligned to +/- strand):  ref base C (18/20);  new base T (3/2);  total (21/22)
Fisher's exact test for biased strand distribution p-value = 6.64e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.07e-01

GTCGCTTTCTTTGCTTGCGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAGGGGTTGTTTGCCCGAAT  >  NC_002947/2900638‑2900925
                                                                                                                                                  |                                                                                                                                             
gTCGCTTTCTTTGCTTGCGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGt                                                                                                                                            >  2:1323521/1‑150 (MQ=255)
 tCGCTTTCTTTGCTTGCGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTc                                                                                                                                           <  2:1355933/150‑1 (MQ=255)
     tttctttGCTTGCGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCGCGGGCCCGTGGTcaaca                                                                                                                                       >  1:1025487/1‑146 (MQ=255)
     tttctttGCTTGCGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAACGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCGCGGGCCCGTGGTcaaca                                                                                                                                       <  2:1025487/150‑5 (MQ=255)
        ctttGCTTGCGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAAt                                                                                                                                    <  1:194995/150‑1 (MQ=255)
          ttgcttgcGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTc                                                                                                                                  >  1:1279062/1‑150 (MQ=255)
                 cGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTaaaa                                                                                                                           <  1:834617/150‑1 (MQ=255)
                               ccATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGa                                                                                                             >  2:586021/1‑150 (MQ=255)
                               ccATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGa                                                                                                             >  2:425642/1‑150 (MQ=255)
                                 aTCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATa                                                                                                           >  2:372009/1‑150 (MQ=255)
                                          tcCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGc                                                                                                  >  1:856407/1‑150 (MQ=255)
                                           ccGTTGTTATTGTTGTTTGCGAAGGTTCCGCCATAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCTTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCa                                                                                                 <  2:418669/150‑1 (MQ=255)
                                              ttgttATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCaaaa                                                                                              <  1:1323521/150‑1 (MQ=255)
                                                         gttTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTcc                                                                                   >  2:1265686/1‑150 (MQ=255)
                                                         gttTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTcc                                                                                   <  2:1009259/150‑1 (MQ=255)
                                                          tttGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAAc                                                                                         <  1:127652/143‑1 (MQ=255)
                                                          tttGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAAc                                                                                         >  2:127652/1‑143 (MQ=255)
                                                                             agGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGcga                                                               <  2:856407/150‑1 (MQ=255)
                                                                                       aaGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTAcc                                                     >  2:1101746/1‑150 (MQ=255)
                                                                                              gaggCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTTCAAAGAGATTTAAGCGTCGACTTTACATGCGaat                                              >  2:588998/1‑150 (MQ=255)
                                                                                                 gCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTaa                                                                                          >  1:769487/1‑103 (MQ=255)
                                                                                                 gCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTaa                                                                                          <  2:769487/103‑1 (MQ=255)
                                                                                                   aaCGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAatcg                                         >  1:889199/1‑150 (MQ=255)
                                                                                                        tcggtGTGCCTGCGTCTGTGGTCCATGTTGCCCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGt                                    <  1:1072235/150‑1 (MQ=255)
                                                                                                                ccTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATaaa                            >  1:39638/1‑150 (MQ=255)
                                                                                                                ccTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATaaa                            >  2:501901/1‑150 (MQ=255)
                                                                                                                     gTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAAc                                                                                         <  2:1155265/84‑1 (MQ=255)
                                                                                                                     gTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGAAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAAc                                                                                         >  1:1155265/1‑84 (MQ=255)
                                                                                                                            gTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAgggg                <  1:501901/150‑1 (MQ=255)
                                                                                                                            gTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAgggg                <  1:372009/150‑1 (MQ=255)
                                                                                                                              ccATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAGGGgtt              <  2:889199/150‑1 (MQ=255)
                                                                                                                              ccATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACACAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACtt                                                         <  2:126551/107‑1 (MQ=255)
                                                                                                                              ccATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACACAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACtt                                                         >  1:126551/1‑107 (MQ=255)
                                                                                                                                 tGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGcc                                 <  1:176283/128‑1 (MQ=255)
                                                                                                                                 tGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGcc                                 >  2:176283/1‑128 (MQ=255)
                                                                                                                                 tGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAGGGgttgtt           <  1:1265686/150‑1 (MQ=255)
                                                                                                                                  gTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTTCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCCACGACTTTACCTTCGAATAATCGATCGTGCCATAAACTGTGACAGGGGTTGttt          <  1:1205748/150‑1 (MQ=255)
                                                                                                                                   tagACCGCGGGCCCGTGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAGGGGTTGTTTg         >  1:445026/3‑150 (MQ=255)
                                                                                                                                     gACCGCGGGCCCGTGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTaa                                                                                          >  1:255035/1‑67 (MQ=255)
                                                                                                                                     gACCGCGGGCCCGTGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTaa                                                                                          <  2:255035/67‑1 (MQ=255)
                                                                                                                                          cGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAGGGGTTGTTTGCCCGAAt  <  2:1279062/150‑1 (MQ=255)
                                                                                                                                               ccGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAGGGgtt              >  2:320998/1‑133 (MQ=255)
                                                                                                                                               ccGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAGGGgtt              <  1:320998/133‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                             
GTCGCTTTCTTTGCTTGCGAGCTGGAGTGAGCCATCGTTGTCTCCGTTGTTATTGTTGTTTGCGCAGGTTCCGCCAGAGGTTATGCCAAGGCAGGAGGCAACGGTCGGTGTGCCTGCGTCTGTGGTCCATGTTGACCACGGGCCCGCGGTCTAGCAATTCGCTAAAACGGGTTTTGTGCGATAATCGAACGCAAAACTAACCATTCCGTACAAAGAGATTGAAGCGACGACTTTACCTGCGAATAATCGATCGTGCCATAAACTGTGACAGGGGTTGTTTGCCCGAAT  >  NC_002947/2900638‑2900925

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑