Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,994,960	C→T	A134T (GCG→ACG)	uvrY ←	response regulator in two‑component regulatory system with BarA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,994,960	0	C	T	97.9%	152.3 / ‑3.9	47	A134T (GCG→ACG)	uvrY	response regulator in two‑component regulatory system with BarA
Reads supporting (aligned to +/- strand):  ref base C (1/0);  new base T (24/22);  total (25/22)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.75e-01

AGCTGTTCTGAGATCTCATTGACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGCCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAGCCCGCAGCACCGGCCTGCATGACTTTCG  >  NC_000913/1994839‑1995088                                                                                                                          |                                                                                                                                 aGCTGTTCTGAGATCTCATTGACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGt                                                                                                                 >  2:1435428/1‑139 (MQ=255) aGCTGTTCTGAGATCTCATTGACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGt                                                                                                                 <  1:466584/139‑1 (MQ=255)     gTTCTGAGATCTCATTGACCTTCTGGCCCCTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTCGAGCGATGTCAGa                                                                                                             >  1:1149921/1‑139 (MQ=255)           agaTCTCATTGACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAAt                                                                                                       >  1:1150300/1‑139 (MQ=255)                tcATTGACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCg                                                                                                                     >  2:303851/1‑120 (MQ=255)                tcATTGACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCg                                                                                                                     <  1:303851/120‑1 (MQ=255)                tcATTGACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGCCATTTGTTGAGCGATGTCAGAAGCAATGTAAc                                                                                                  >  1:80909/1‑139 (MQ=255)                     gACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGc                                                                                             <  2:1150300/139‑1 (MQ=255)                          tCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAg                                                                                                              <  2:879438/117‑1 (MQ=255)                          tCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAg                                                                                                              >  1:879438/1‑117 (MQ=255)                            tGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGc                                                                                             <  2:38722/132‑1 (MQ=255)                            tGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGc                                                                                             >  1:38722/1‑132 (MQ=255)                                  ttGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCAt                                                                                                                               <  1:18215/92‑1 (MQ=255)                                  ttGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCAt                                                                                                                               >  2:18215/1‑92 (MQ=255)                                  ttGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAg                                                                                                                       >  2:1387014/1‑100 (MQ=255)                                  ttGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACGGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAg                                                                                                                       <  1:1387014/100‑1 (MQ=255)                                   tGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAg                                                                                                           >  2:725917/1‑111 (MQ=255)                                   tGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAg                                                                                                           <  1:725917/111‑1 (MQ=255)                                   tGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGa                                                                               >  1:1125841/1‑139 (MQ=255)                                   tGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGa                                                                               >  1:455155/1‑139 (MQ=255)                                               gCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACt                                                                   >  1:1330986/1‑139 (MQ=255)                                                   aaTCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACg                                                               <  2:455155/139‑1 (MQ=255)                                                     tCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACg                                                                                                 >  1:278842/1‑103 (MQ=255)                                                     tCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACg                                                                                                 <  2:278842/103‑1 (MQ=255)                                                     tCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGc                                                                                             >  2:162648/1‑107 (MQ=255)                                                     tCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGc                                                                                             <  1:162648/107‑1 (MQ=255)                                                          aaTTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCt                                                        >  2:433408/1‑139 (MQ=255)                                                           aTTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTg                                                       <  2:827310/139‑1 (MQ=255)                                                                  ttCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGcc                                                <  2:1125841/139‑1 (MQ=255)                                                                   tCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACg                                                                                                 >  1:647037/1‑89 (MQ=255)                                                                   tCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACg                                                                                                 <  2:647037/89‑1 (MQ=255)                                                                    cAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAg                                                                                                           >  1:16778/1‑78 (MQ=255)                                                                    cAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAg                                                                                                           <  2:16778/78‑1 (MQ=255)                                                                       aCAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGcc                                           >  1:1634/1‑139 (MQ=255)                                                                           aCTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGc                                                                                                                      >  1:803934/1‑60 (MQ=255)                                                                           aCTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGc                                                                                                                      <  2:803934/60‑1 (MQ=255)                                                                                    tGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAg                              >  2:469773/1‑139 (MQ=255)                                                                                     gggCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACt                                                            <  2:1422352/108‑1 (MQ=255)                                                                                     gggCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACt                                                            >  1:1422352/1‑108 (MQ=255)                                                                                        cTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAGCCCg                          <  1:1151257/139‑1 (MQ=255)                                                                                        cTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAGCCCg                          <  2:1330986/139‑1 (MQ=255)                                                                                                         ttCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATc                                                                        >  2:634329/1‑76 (MQ=255)                                                                                                         ttCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATc                                                                        <  1:634329/76‑1 (MQ=255)                                                                                                         ttCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAGCCCGCAGCACCGGCCTGCATg         >  2:798852/1‑139 (MQ=255)                                                                                                          tCGATCTGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAGCCCGCAGCACCGGCCTGCATGa        >  2:95387/1‑139 (MQ=255)                                                                                                                tGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAGCCCGCAGCACCGGCCTGCATGACTTTCg  <  2:483395/139‑1 (MQ=255)                                                                                                                tGGCTTAACGTCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAGCCCGCAGCACCGGCCTGCATGACTTTCg  <  2:785594/139‑1 (MQ=255)                                                                                                                          |                                                                                                                                 AGCTGTTCTGAGATCTCATTGACCTTCTGGCCCTTGGTGATCATCAGCATAATCTGCAATTCACGTTCAGACAAACTGGCAAATGGGCTTTCTGTTTTTTCTGGTTCGATCTGGCTTAACGCCATTTGTTGAGCGATGTCAGAAGCAATGTAACGCTGCCCTGAATAGACAGAACGAATCGCACTCACGACTTCCTGCGGAGCCGCGCCTTTGCTGAGGTAGCCCGCAGCACCGGCCTGCATGACTTTCG  >  NC_000913/1994839‑1995088

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑