Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 3,665,576 C→T V79I (GTT→ATT)  gadX ← DNA‑binding transcriptional dual regulator GadX

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,665,5760CT91.7% 62.6 / ‑4.9 25V79I (GTT→ATT) gadXDNA‑binding transcriptional dual regulator GadX
Reads supporting (aligned to +/- strand):  ref base C (2/0);  new base T (12/10);  total (15/10)
Fisher's exact test for biased strand distribution p-value = 4.93e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.34e-01

TGTCCACTCATGGGCGATATTATTATTGATAACCGTACAAACTCGTGTTCGCATGTTCGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACAC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCAT  >  NC_000913/3665331‑3665810
                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                             
tgtCCACTCATGGGCGATATTATTATTGATAACCGTACAAACTCGTGTTCGCATGTTCGGTTGTAAAACGTTAAGAAGCAGCGGTATAAAGAGCTCATCCTCAAGAAAAACAGATAACAACGCAACGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCTTGAAACACAGGCATATCTCTACTACAGTGATGAACGAGTAATGAAGCAAttttt‑t                                                                                                                                                                                                                                         >  2:901/1‑251 (MQ=255)
     attCATGGGCGATATTATTATTGATAACCGTACAAACTCGTGTGCGCATGTTCGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACATTGATGAACGAGTAATGAAGAAATTTTT‑TTAt‑gt                                                                                                                                                                                                                                   <  2:528240/249‑1 (MQ=255)
                            aTAACCGTACAAACTAGTGTTCGAAAGGTCGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAGCGCACAGATTAATGCTCTTTTACGTAGAATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCACAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACAAGTAATGAAAAATTTTTT‑TTAT‑GAGCATGAAGATTTAATGcctcctc                                                                                                                                                                                                            >  2:393370/1‑251 (MQ=255)
                                  gTACAAACTCGTGTTCGCATGTTCGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTg                                                                                                                                                                                                        >  2:580833/1‑249 (MQ=255)
                                      aaaatCGTGTACGCATTTGCGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCCAGAAAAACAGATAACAACGCAAAGATGAATTCTCTTTTACGTAGCATTTCTGCATATCGAAGATTCTTATTCTGCGATAGTTGCGCATCTTCCTGAAAATCATTAATATCTCTACTACAGTGATGAACGATTAATTAATAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCCCCTTTAGCATc                                                                                                                                                                                                  <  2:558192/247‑1 (MQ=255)
                                       aaCTCTTGTTCGCAGGTTCGGATGTCAAACGTTCAGAAGCAGCGGTCTAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGACCTAGTAATGACGAAATTTTT‑TTAT‑GTGCATGAAGATTTCATGCATCTTCCTTGAACATCg                                                                                                                                                                                                 >  2:656243/1‑251 (MQ=255)
                                           cGTGATCGCATGTTCGGGTGAAAAACGTTCAGAAGCAGAGGTATAACGAGCTCATCCTCGAGAAAAACAGATAAAAACGCAAAGCTTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTATTACAGTGATGAATGAGAAATGAAGCAA‑TTTT‑TTATTGTGCATGAAGATTTAGAGCCTCCTCCTTGAGCATCggg                                                                                                                                                                                               >  2:58986/1‑249 (MQ=255)
                                                tCGCATGTTCGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAaat                                                                                                                                                                                         <  1:67159/250‑1 (MQ=255)
                                                  gCATGTTCGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAaataat                                                                                                                                                                                      >  1:103943/1‑251 (MQ=255)
                                                  gCATGTTCGGTTGTAAAACGTACAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAaataat                                                                                                                                                                                      <  1:182965/251‑1 (MQ=255)
                                                         cGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGc                                                                                                                                                                                <  1:450327/250‑1 (MQ=255)
                                                                              cagcGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACa                                                                                                                                                           >  1:155496/1‑250 (MQ=255)
                                                                                       aaaGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCaa                                                                                                                                                 <  2:273502/251‑1 (MQ=255)
                                                                                       aaaGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCaa                                                                                                                                                 <  1:631079/251‑1 (MQ=255)
                                                                                                  ccTCAAGAAAAACAGATAACAACGCAAAGAGTAATGCTCTTTTACGTAGCATTGCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACAC‑TTATCt                                                                                                                                     <  1:329935/251‑1 (MQ=255)
                                                                                                          aaaaCAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACAC‑TTATCTACTCGAAt                                                                                                                             <  1:432487/251‑1 (MQ=255)
                                                                                                           aaaCAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAACTTTTCAACACAC‑TTATCTACTCGAAtt                                                                                                                            >  2:467086/1‑251 (MQ=255)
                                                                                                               aGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACAC‑TTATCTACTCGAATTTGGc                                                                                                                        >  2:445268/1‑251 (MQ=255)
                                                                                                                 aTAACAACGCAACGAATAATGCTCTTTTACGTAGCATTTTTGCCTAGAGAAGATTCTTATTCTGCGATAATTGCGCAACTTCCTGACAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGCATTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCATTGACACAAAGACAAAATTTTCAACA‑ACATTATCTACTCGAATTTGGCtt                                                                                                                      >  2:189115/1‑251 (MQ=255)
                                                                                                                        cGCAAAGATTAATGCTCTTTTCCGTAGCATCTCTGCATAGCGAAGATTCTTATTCTGCGATATTTGCGCAACTTCCTGAAAAACAGGCATATCTCTACTACAGTGATGAACGAGTAATGAAGAA‑CTTTTATTAT‑GTGCATGAAGATTTAATGCATCCTCCTTGAGCCTCGGGTGAACTAATGCAAGCGTGTCACTTGACACGAATACAAAATTTTCAACACAT‑TTATCTAATCACATTTGGCTTGCATCCg                                                                                                               >  2:150238/1‑251 (MQ=255)
                                                                                                                                                          gCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCATCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACAC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGat                                                                              >  2:165611/1‑250 (MQ=255)
                                                                                                                                                              aGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACAC‑TTATCTACTCGACTTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTc                                                                          >  2:216367/1‑250 (MQ=255)
                                                                                                                                                                         ttattatgcgcaaattGCGCAACTTCCTGAAAAACCGGAATATATCTACTACAGGGATGAACGAGTAATGAAGAAATTGTT‑TTAT‑GTGCATGAAGATTTAATGCCTCATACTTGAGCATCGGGAGAAATAATGAAAGCGTGTTCCTTGACACGCATACAAAATTTTAAACACAC‑TTATCTACTCGAATTTGGCTTGCATCCGAAAAAACCAGGTCCCCCCCATTAAAATATCGATATTCACCATTAACCAt                                                              >  2:435431/15‑251 (MQ=255)
                                                                                                                                                                                                                           acAGTGCTGAACGAGTAATGAAGAAACTTTT‑TTAT‑GTGAATGAAGATTTAATGCCTACTCCTTGAACATAGGGAGACATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACAC‑TTATCTACTCGAATTTGGCTTGCATCCGCACAAACCAGTTCACCGCCATTAAAATAGCGATATTCACCATTAACCAt                                                              >  2:641379/1‑201 (MQ=255)
                                                                                                                                                                                                                            cAGTGATGAACGAGTAATGAAGAAATTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACCCGAATACAAAATTTTCAACACAC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGt             >  2:30338/1‑249 (MQ=255)
                                                                                                                                                                                                                                     aCGAGAAAAGAAGAATTTTTT‑TTTT‑GTGAAAGAAGATTTAATCCCTCCTCTTGGAGCATGGGGAAAAATAAGGAAAGCTTGCCCCTTGACAAAAAAAAAAAATTTCAAACACAC‑TTATCTACGCAATTTTGGTTTGCACCCGAAAAAACCAGTCCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCAt  <  1:165611/251‑1 (MQ=255)
                                                                                                                                                                                                                                                     |                                                                                                                                                                                                                                             
TGTCCACTCATGGGCGATATTATTATTGATAACCGTACAAACTCGTGTTCGCATGTTCGGTTGTAAAACGTTCAGAAGCAGCGGTATAAAGTGCTCATCCTCAAGAAAAACAGATAACAACGCAAAGATTAATGCTCTTTTACGTAGCATTTCTGCATAGCGAAGATTCTTATTCTGCGATAGTTGCGCAACTTCCTGAAAAACAGGAATATCTCTACTACAGTGATGAACGAGTAATGAAGAAACTTTT‑TTAT‑GTGCATGAAGATTTAATGCCTCCTCCTTGAGCATCGGGAGAAATAATGAAAGCGTGTCCCTTGACACGAATACAAAATTTTCAACACAC‑TTATCTACTCGAATTTGGCTTGCATCCGCAAAAACCAGGTCACCGCCATTAAAATAGCGATATTCACCATTAACCATGGTGAGAATATATTTATGTCTTGCATACGCAATTAGACAATTCCCATGTAGTGATTGCAT  >  NC_000913/3665331‑3665810

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑