Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,915,105	C→T	P17S (CCG→TCG)	barA →	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,915,105	0	C	T	100.0%	171.2 / NA	53	P17S (CCG→TCG)	barA	hybrid sensory histidine kinase, in two‑component regulatory system with UvrY
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (28/25);  total (28/25)

TGCGCCATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCACCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCATG  >  NC_000913/2914993‑2915236                                                                                                                 |                                                                                                                                    tGCGCCATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTg                                                                                                           <  1:108962/139‑1 (MQ=255)   cgcCATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAg                                                                                                         >  2:1282085/1‑139 (MQ=255)                    tctcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGc                                                                                        <  1:326080/139‑1 (MQ=255)                     ctcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGt                                                                                                        >  1:1073162/1‑122 (MQ=255)                     ctcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGt                                                                                                        <  2:1073162/122‑1 (MQ=255)                     ctcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCa                                                                                       >  2:584179/1‑139 (MQ=255)                      tcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                      <  2:1413422/139‑1 (MQ=255)                      tcAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                      <  1:1282085/139‑1 (MQ=255)                              aCAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                >  2:755209/1‑89 (MQ=255)                              aCAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                <  1:755209/89‑1 (MQ=255)                                aGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACg                                                                            <  1:584179/139‑1 (MQ=255)                                      aCCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTc                                                                                                                             >  2:885037/1‑84 (MQ=255)                                      aCCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTc                                                                                                                             <  1:885037/84‑1 (MQ=255)                                           aaTTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGt                                                                 >  1:410005/1‑139 (MQ=255)                                                 cccATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgac                                                                                                                                 >  1:1326113/1‑69 (MQ=255)                                                 cccATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgac                                                                                                                                 <  2:1326113/69‑1 (MQ=255)                                                     tAACGGAACTCCATGACCAACTACCGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                              >  2:967532/1‑100 (MQ=255)                                                     tAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcga                                                                                                                                  <  2:1031889/64‑1 (MQ=255)                                                     tAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcga                                                                                                                                  >  1:1031889/1‑64 (MQ=255)                                                     tAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAg                                                       >  1:656681/1‑139 (MQ=255)                                                     tAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATGCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                              <  1:967532/100‑1 (MQ=255)                                                             cTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                              <  2:1112030/92‑1 (MQ=255)                                                             cTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                              >  1:1112030/1‑92 (MQ=255)                                                             cTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCg                                                                  >  1:230020/1‑120 (MQ=255)                                                             cTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCg                                                                  <  2:230020/120‑1 (MQ=255)                                                               ccATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGc                                             <  2:410005/139‑1 (MQ=255)                                                                 aTGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCa                                           >  1:1220508/1‑139 (MQ=255)                                                                  tGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAg                                          >  2:67011/1‑139 (MQ=255)                                                                     ccAACTACAGCCTGCGCGCACGCATGATGATTCTGCTCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCg                                                                  <  2:1026313/112‑1 (MQ=255)                                                                     ccAACTACAGCCTGCGCGCACGCATGATGATTCTGATCATGGCATCGACCGTCCTTATTGGCTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCg                                                                  >  1:1026313/1‑112 (MQ=255)                                                                        aCTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                >  1:726248/1‑47 (MQ=255)                                                                        aCTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCatcgacc                                                                                                                                <  2:726248/47‑1 (MQ=255)                                                                        aCTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                              >  1:114394/1‑81 (MQ=255)                                                                        aCTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                              <  1:1247732/81‑1 (MQ=255)                                                                        aCTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                              >  2:1247732/1‑81 (MQ=255)                                                                        aCTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTtcg                                                                                              <  2:114394/81‑1 (MQ=255)                                                                          tACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCg                                                                  >  2:1295613/1‑107 (MQ=255)                                                                          tACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCg                                                                  <  1:1295613/107‑1 (MQ=255)                                                                               ccTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                      <  1:1322020/82‑1 (MQ=255)                                                                               ccTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCAt                                                                                      >  2:1322020/1‑82 (MQ=255)                                                                               ccTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCg                             >  1:895587/1‑139 (MQ=255)                                                                               ccTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCg                             >  2:703610/1‑139 (MQ=255)                                                                               ccTGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCg                             >  2:71394/1‑139 (MQ=255)                                                                                 tGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTa                                                                                                                 <  1:532977/53‑1 (MQ=255)                                                                                 tGCGCGCACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTa                                                                                                                 >  2:532977/1‑53 (MQ=255)                                                                                   cgcgcACGCATGATGATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTg                         >  1:112140/1‑139 (MQ=255)                                                                                            atgatgATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTa                <  2:656681/139‑1 (MQ=255)                                                                                            atgatgATTCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTa                <  1:67011/139‑1 (MQ=255)                                                                                                    tCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGc                                                   >  1:341936/1‑96 (MQ=255)                                                                                                    tCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGc                                                   <  2:341936/96‑1 (MQ=255)                                                                                                    tCTGATCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAatat        >  2:386353/1‑139 (MQ=255)                                                                                                        aTCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTAt                                                                                                      <  1:1327389/41‑1 (MQ=255)                                                                                                        aTCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTAt                                                                                                      >  2:1327389/1‑41 (MQ=255)                                                                                                        aTCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTg                                              <  2:503435/97‑1 (MQ=255)                                                                                                        aTCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTg                                              >  1:503435/1‑97 (MQ=255)                                                                                                        aTCCTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCa    >  1:65514/1‑139 (MQ=255)                                                                                                          ccTGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCATg  <  1:71394/139‑1 (MQ=255)                                                                                                            tGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCg                                                                  <  2:116985/73‑1 (MQ=255)                                                                                                            tGGCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCg                                                                  >  1:116985/1‑73 (MQ=255)                                                                                                             ggCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCa    <  2:509352/134‑1 (MQ=255)                                                                                                             ggCATCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCa    >  1:509352/1‑134 (MQ=255)                                                                                                                 |                                                                                                                                    TGCGCCATTGGCGAGACTTTCTCAATTTAACAGTGTGACCTTAATTGTCCCATAACGGAACTCCATGACCAACTACAGCCTGCGCGCACGCATGATGATTCTGATCCTGGCACCGACCGTCCTTATTGGTTTATTGCTGAGTATCTTTTTCGTCGTGCATCGCTATAACGACTTGCAGCGTCAACTGGAAGATGCCGGTGCCAGCATTATTGAGCCGCTTGCAGTTTCTACTGAATATGGCATG  >  NC_000913/2914993‑2915236

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑