Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,664,363	(G)6→7	coding (256/729 nt)	gadW ←	transcriptional activator of gadA and gadBC, repressor of gadX

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,664,357	1	.	G	100.0%	190.4 / NA	53	M88L (ATG→CTG)	gadW	transcriptional activator of gadA and gadBC, repressor of gadX
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base G (26/27);  total (26/27)

TGCTATTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑GGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTATCCGGTGAACA  >  NC_000913/3664219‑3664489                                                                                                                                            |                                                                                                                                     tGCTATTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAt                                                                                                                                       <  2:13538/139‑1 (MQ=255)     aTTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑gggg                                                                                                                                  >  2:987618/1‑139 (MQ=255)     aTTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑gggg                                                                                                                                  >  2:869525/1‑139 (MQ=255)              tAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTg                                                                                                                          >  1:1006358/1‑139 (MQ=255)              tAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTg                                                                                                                          >  1:944858/1‑139 (MQ=255)                 ggggATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGtt                                                                                                                       <  1:869525/139‑1 (MQ=255)                        aGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAAc                                                                                                                >  1:476026/1‑139 (MQ=255)                            ctttcttATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAAc                                                                                                            <  1:1032952/139‑1 (MQ=255)                                  tATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTTACCAGTGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCtt                                                                                                      <  2:476026/139‑1 (MQ=255)                                    tGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    <  2:944858/139‑1 (MQ=255)                                    tGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    <  2:219206/139‑1 (MQ=255)                                    tGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    >  1:219206/1‑139 (MQ=255)                                    tGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    >  1:407798/1‑139 (MQ=255)                                      agaAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCt                                                                                                  >  2:964261/1‑139 (MQ=255)                                         aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTTTCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               <  2:1072004/139‑1 (MQ=255)                                         aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               >  1:881547/1‑139 (MQ=255)                                         aaaCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               <  1:964261/139‑1 (MQ=255)                                           aCATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTa                                                                                             >  1:52133/1‑139 (MQ=255)                                                gATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCt                                                                                        <  2:881547/139‑1 (MQ=255)                                                                 gagCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCtt                                                                                                      >  2:32806/1‑108 (MQ=255)                                                                 gagCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCtt                                                                                                      <  1:32806/108‑1 (MQ=255)                                                                        ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGt                                                                                                                        <  2:193958/83‑1 (MQ=255)                                                                        ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGt                                                                                                                        >  1:193958/1‑83 (MQ=255)                                                                        ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTa                                                                                       >  2:573988/1‑116 (MQ=255)                                                                        ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTa                                                                                       <  1:573988/116‑1 (MQ=255)                                                                        ttGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAata                                                                >  2:731849/1‑139 (MQ=255)                                                                         tGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑gggggggtga                                                                                                                            >  1:577470/1‑73 (MQ=255)                                                                         tGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑gggggggtga                                                                                                                            <  2:577470/77‑5 (MQ=255)                                                                           cTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    >  2:1084489/1‑100 (MQ=255)                                                                           cTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    <  1:1084489/100‑1 (MQ=255)                                                                              aGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    >  1:877470/1‑97 (MQ=255)                                                                              aGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    <  2:877470/97‑1 (MQ=255)                                                                              aGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTgt                                                          >  1:928610/1‑139 (MQ=255)                                                                                     gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               >  2:210429/1‑95 (MQ=255)                                                                                     gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               <  1:210429/95‑1 (MQ=255)                                                                                     gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAat                                                                 >  2:794538/1‑125 (MQ=255)                                                                                     gTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAat                                                                 <  1:794538/125‑1 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               >  2:860599/1‑90 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               <  1:1127052/90‑1 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               >  1:1030131/1‑90 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               <  1:860599/90‑1 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               >  2:1127052/1‑90 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCtgtg                                                                                               <  2:1030131/90‑1 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCaa                                              <  1:731849/139‑1 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑gggggggtga                                                                                                                            <  1:588550/60‑5 (MQ=255)                                                                                          tttACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑gggggggtga                                                                                                                            >  2:588550/1‑56 (MQ=255)                                                                                          tttACCCCGGATTCAGTGAAGCTATCAAAAATCGCCGGCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACGAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCaa                                              >  2:759071/1‑139 (MQ=255)                                                                                                   gATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGc                                     <  2:928610/139‑1 (MQ=255)                                                                                                        aTTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑gg                                                                                                                                    >  2:702139/1‑38 (MQ=255)                                                                                                        aTTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑gg                                                                                                                                    <  1:702139/38‑1 (MQ=255)                                                                                                         ttGAAGCTATCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCg                               <  2:407798/139‑1 (MQ=255)                                                                                                                 aTCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAg                       >  2:1076521/1‑139 (MQ=255)                                                                                                                  tCAAAATTCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCAGTGTAACCCTAGATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAgt                      <  2:810803/139‑1 (MQ=255)                                                                                                                  tCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    >  2:613981/1‑61 (MQ=255)                                                                                                                  tCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    <  1:613981/61‑1 (MQ=255)                                                                                                                  tCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGaa                                                                  <  1:177998/95‑1 (MQ=255)                                                                                                                  tCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGaa                                                                  >  2:177998/1‑95 (MQ=255)                                                                                                                  tCAAAAATCGCCGTCACCAGCGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAgt                      >  2:262202/1‑139 (MQ=255)                                                                                                                                      cGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    <  1:451838/41‑1 (MQ=255)                                                                                                                                      cGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTg                                                                                                    >  2:451838/1‑41 (MQ=255)                                                                                                                                      cGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTATCCGGTGAACa  <  2:1006358/139‑1 (MQ=255)                                                                                                                                      cGGCATGGGGGGGTGACTGGTTAATTAACAAACGGTCTTTACTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAGCTGTCTGCTCATCGATATCCAGTCGTCGCGTATCCGGTGAACa  <  1:759071/139‑1 (MQ=255)                                                                                                                                            |                                                                                                                                     TGCTATTGAAAAGTAAGGGGATCAGTTCTTTCTTATGAGAAAACATCGATAAACAGGAAAGGTAGAGCATATTGCTCAGTATCGGTGAATTTACCCCGGATTCATTGAAGCTATCAAAAATCGCCGTCACCAGCGGCAT‑GGGGGGTGACTGGTTAATTAACAAACGGTCTTTGCTGTGTAACCCTAAATTGCGTGGTAGCTGACGAATATTTTGTAAGTAATGGCAAACTGTCAGCTCATCGATATCCAGTCGTCGCGTATCCGGTGAACA  >  NC_000913/3664219‑3664489

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑