Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,942,448	T→C	Q40Q (CAA→CAG)	gcvA ←	DNA‑binding transcriptional dual regulator GcvA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,942,448	0	T	C	100.0%	135.5 / NA	40	Q40Q (CAA→CAG)	gcvA	DNA‑binding transcriptional dual regulator GcvA
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (21/19);  total (21/19)

TACGCGTCGCTTCGGTTAATTGCGAAAATATCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATTTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGACATGGCTATTAAACTTTGAT  >  NC_000913/2942312‑2942584                                                                                                                                         |                                                                                                                                         tACGCGTCGCTTCGGTTAATTGCGAAAATATCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGACGGCGGCAAAGTTTTACCCCCAAAAAATACGCAAGAGACttgatctga                                                                                                                                       >  2:414768/1‑140 (MQ=255)       tCGCTTCGGTTAATTGCGAAAATATCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACtt                                                                                                                                 >  1:52677/1‑140 (MQ=255)         gCTTCGGTTAATTGCGAAAATATCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTAc                                                                                                                               <  1:548313/140‑1 (MQ=255)                         aaaaTATCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTcaca                                                                                                               <  2:1011459/140‑1 (MQ=255)                          aaaTATCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAGAATCCTCAGGAGGCTTAATCTGATGACTTAATGCGGCTTGGGTCACaa                                                                                                              >  2:304203/1‑140 (MQ=255)                            atatCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACaaaa                                                                                                            <  1:579811/140‑1 (MQ=255)                              atCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAg                                                                                                          <  1:222845/140‑1 (MQ=255)                                           cGAGGAAATAGCTTTGCCCTTCCTCGGTCAGTAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTgcg                                                                                             <  1:159262/140‑1 (MQ=255)                                           cGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTgcg                                                                                             <  2:979842/140‑1 (MQ=255)                                             aGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGcgcg                                                                                           >  1:884360/1‑140 (MQ=255)                                                  aTAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGa                                                                                      <  2:193230/140‑1 (MQ=255)                                                    aGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCCCAAGAGACTTTATCTGATGTCTTACTGCGGCTTTGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGaaa                                                                                    >  1:751747/1‑140 (MQ=255)                                                        ttGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTa                                                                                >  1:764707/1‑140 (MQ=255)                                                          gCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTaaa                                                                              >  2:139450/1‑140 (MQ=255)                                                          gCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTaaa                                                                              >  1:74763/1‑140 (MQ=255)                                                          gCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGATTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTaaa                                                                              >  1:87908/1‑140 (MQ=255)                                                           cccTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAAt                                                                             >  1:570645/1‑140 (MQ=255)                                                            cagtCCTCGGTCAGCAGCAGTGTACGATTACGGCGGCGGGACAGTTTTGGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATg                                                                            <  2:334624/137‑1 (MQ=255)                                                               tCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCg                                                                         >  1:569823/1‑140 (MQ=255)                                                                         gcagGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCa                                                               >  2:936961/1‑140 (MQ=255)                                                                          cagGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCAGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGctg                                                              >  1:334624/1‑138 (MQ=255)                                                                               gTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCaaaa                                                         <  2:150582/140‑1 (MQ=255)                                                                                tGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGATACTTAAATGGCGTACTGTGGCATCaaaaa                                                        >  1:306498/1‑140 (MQ=255)                                                                                tGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCaaaaa                                                        >  1:645963/1‑140 (MQ=255)                                                                                tGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCaaaaa                                                        >  1:767878/1‑140 (MQ=255)                                                                                tGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGGCCGGGGGCATCaaaaa                                                        >  1:836800/1‑140 (MQ=255)                                                                                tGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTAAAGTGGCGTCCTGCGGCATCaaaaa                                                        >  1:401535/1‑140 (MQ=255)                                                                                    cGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCg                                                    >  1:814093/1‑140 (MQ=255)                                                                                    cGATTACGGCGGCGGAAAAGTTCTAGCCCCAAAAACTCCTCAAGAGACGTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCg                                                    <  2:330502/140‑1 (MQ=255)                                                                                     gATTACGGCGGCGGACCAGTTTCAGTCCCGAAAAATCGTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGt                                                   <  1:304203/140‑1 (MQ=255)                                                                                       ttACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGGGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTaa                                                 >  2:690527/1‑140 (MQ=255)                                                                                       ttACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTaa                                                 <  2:52677/140‑1 (MQ=255)                                                                                                 ggAACAGTTTTAGCCCCAAAAAATCCCCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGc                                       <  2:751747/140‑1 (MQ=255)                                                                                                      aGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCggtgg                                  <  2:645963/140‑1 (MQ=255)                                                                                                        ttttAGCCCCAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTa                                <  1:29026/140‑1 (MQ=255)                                                                                                         tttAGCCCCAAAAAATCCTCAACAGCCTTAATCTGATCACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAGCTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTaa                               <  1:282111/140‑1 (MQ=255)                                                                                                                 cAAAAAATCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAACGCGTTTAGCAGTGGTAATCGTTTAg                       >  1:325663/1‑140 (MQ=255)                                                                                                                  aaaaaaTCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGa                      >  2:782699/1‑140 (MQ=255)                                                                                                                       aTCCTCAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGACATgg                 <  1:782699/140‑1 (MQ=255)                                                                                                                            cAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGACATGGCTAtt            <  2:764707/140‑1 (MQ=255)                                                                                                                            cAAGAGACTTGATCTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTG‑GGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGACATGGCTATTa           <  1:139450/140‑1 (MQ=255)                                                                                                                                   cTTGATCTGATGACTTCTTGCGGCTTGGGTCCCGATAAGCTCTTCTTCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGACATGGCTATTAAACttt     <  2:458649/140‑1 (MQ=255)                                                                                                                                    aggatctgatGACTTCCTGCGGTTTCGGTCACAAAAACCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGACATGGCTATTAAACTTTg    <  1:339803/138‑1 (MQ=255)                                                                                                                                      gatctgatGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGACATGGTTATTAAACTTTGAt  <  2:1004671/140‑1 (MQ=255)                                                                                                                                         |                                                                                                                                         TACGCGTCGCTTCGGTTAATTGCGAAAATATCTCTTTGATATCGAGGAAATAGCTTTGCCCTTCCTCGGTCAGCAGGAGTGAACGATTACGGCGGCGGAACAGTTTTAGCCCCAAAAAATCCTCAAGAGACTTGATTTGATGACTTACTGCGGCTTGGGTCACAAAAAGCTCTTCTGCTGCGCGAGTGAAACTTAAATGGCGTGCTGCGGCATCAAAAACTCGTAAGGCATTTAGCGGTGGTAATCGTTTAGACATGGCTATTAAACTTTGAT  >  NC_000913/2942312‑2942584

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑