Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,984,455	G→A	17.6%	intergenic (+51/+38)	PP_5242 → / ← ycaC‑II	GAF domain‑containing sensor histidine kinase/putative hydrolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,984,455	0	G	A	17.6%	71.1 / 8.3	34	intergenic (+51/+38)	PP_5242/ycaC‑II	GAF domain‑containing sensor histidine kinase/putative hydrolase
Reads supporting (aligned to +/- strand):  ref base G (16/12);  new base A (3/3);  total (19/15)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.99e-01

TTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTGCAG  >  NC_002947/5984308‑5984603                                                                                                                                                     |                                                                                                                                                     ttCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAgggg                                                                                                                                                     >  6:306742/1‑149 (MQ=255)    ggTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCgg                                                                                                                                                  >  5:292620/1‑149 (MQ=255)    ggTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                                  <  2:272570/149‑1 (MQ=38)    ggTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAAACCGCGCCGACGGGCGGGGGGAGgggggg                                                                                                                                                  >  8:16786/1‑149 (MQ=255)          tCAGGCCCACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCACTTAGCGGGGTAACCCGCGCCTAAAGGGGGGTGTTGGGGCGGGgtttc                                                                                                                                            >  5:35532/1‑147 (MQ=255)              gCCCACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCcgc                                                                                                                                        <  7:104812/149‑1 (MQ=255)                ccACGGCGGGCAGCTGCAGGCGCTGGGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAggg                                                                                                                                                      >  1:3807/1‑134 (MQ=255)                ccACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAggg                                                                                                                                                      <  2:3807/133‑1 (MQ=255)                ccACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCcgcg                                                                                                                                       >  7:98717/1‑148 (MQ=255)                ccACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                                  >  6:181345/1‑137 (MQ=37)                ccACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                                  <  5:181345/137‑1 (MQ=37)                   cggcggGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCATGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCAGTAGGGGCGGGTTTACCCGCGAaga                                                                                                                                   >  1:93148/1‑149 (MQ=255)                               gCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                                  >  3:64306/1‑122 (MQ=25)                               gCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCgg                                                                                                                                                  <  4:64306/122‑1 (MQ=25)                                 agggggt‑GGTGTCGAAGTTGGGTGTAGGCCTGATTCTTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCGCTTGGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGtt                                                                                                                     <  6:126859/143‑1 (MQ=37)                                     gcT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTACTGGCCTCTTCGCGGGTAAACCCGCCCCTACAGCCGACCGTAGGAGCGGGTTTACCCGCGAAGAGGCCGGCACAggctatgc                                                                                                                 >  1:41855/1‑143 (MQ=17)                                          gtgtCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCa                                                                                                              <  5:306742/148‑1 (MQ=255)                                           tgtCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCGGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAgc                                                                                                            <  6:292620/149‑1 (MQ=255)                                            gtCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGa                                                                                                                                      >  8:257272/1‑122 (MQ=255)                                            gtCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGa                                                                                                                                      <  7:257272/122‑1 (MQ=255)                                             tCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTATTCGCGGGTAAAAACGCAACTACCGACCGCGGTAGGGGCGGGTTTAACCCCCAATACGCCACTTCACGTTTAAATCAgcg                                                                                                           >  8:43682/1‑148 (MQ=255)                                                   ttGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTAc                                                                                                                                            <  6:242523/109‑1 (MQ=255)                                                   ttGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTAc                                                                                                                                            >  5:242523/1‑109 (MQ=255)                                                     gggTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAg                                                                                                  >  4:130668/1‑149 (MQ=255)                                                                          cAGTCTGCCTTTGTATCACGCATAGCCTGTGCCGTCCTCTTCGCGGGTAAACCCGCTCCTTCGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTtcatca                                                                              <  7:43682/148‑1 (MQ=255)                                                                               tGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAAACCGCAACTAAGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGc                                                                        >  1:84608/1‑149 (MQ=255)                                                                                 ccTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCgg                                                                      >  7:33710/1‑149 (MQ=255)                                                                                      gAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGtt                                                                 >  5:138018/1‑149 (MQ=255)                                                                                        aTCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTgg                                                               >  1:37486/1‑149 (MQ=255)                                                                                             gCATAGCCTGTGCCGGCCTCTTCGCGGGTAAAACCGCACCGACGGGCGGGTGTAGGGGCGGGTGTACACGCGGAGAGGCCAGTACAGGTTTAAATGAGCGCCGGGCCAGCGGGGGGGAGCGGTGGAGGCGGGTGCGGTAGTTGGGGaga                                                          >  6:309155/1‑147 (MQ=16)                                                                                                         ccGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGAcag                                               <  3:130668/148‑1 (MQ=255)                                                                                                          cGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGAcagca                                             <  8:98717/149‑1 (MQ=255)                                                                                                                   cgcgGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTAccc                                     <  2:37486/148‑1 (MQ=255)                                                                                                                            aCCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGa                           >  3:128059/1‑149 (MQ=255)                                                                                                                                  tCCTACGGTCGGCTGTAGGGCCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCCAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGt                     >  5:219519/1‑149 (MQ=255)                                                                                                                                       cGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTgc                  <  7:16786/147‑1 (MQ=255)                                                                                                                                       cGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTgc                  <  2:84608/147‑1 (MQ=255)                                                                                                                                                 tAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGt      >  5:229358/1‑149 (MQ=255)                                                                                                                                                   ggggCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTg     >  6:201613/1‑148 (MQ=255)                                                                                                                                                   ggggCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTg     >  1:115560/1‑148 (MQ=255)                                                                                                                                                    gggCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTg     >  4:178009/1‑147 (MQ=255)                                                                                                                                                     ggCTGGTTTTCCCTCGAAGAGTTCTGTATAGGTTTTCATCAGCGCTAGGCCAGCGCTGCGTTGCTGTTCATCAGGTTGCGGTAGTTGGTGATACGCTGATACAGCAGGTTTGCCAGCCCTTGGATTTCGTTGCTCCTGTCGGGGTgga   <  2:93148/148‑3 (MQ=255)                                                                                                                                                     ggCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTGCAg  >  8:244813/1‑149 (MQ=255)                                                                                                                                                     |                                                                                                                                                     TTCGGTGGCTCAGGCCCACGGCGGGCAGCTGCAGGCGCT‑GGTGTCGCAGTTGGGTGGATGCCGGATTCGTGTCAGTCTGCCTTTGAATCACGCATAGCCTGTGCCGGCCTCTTCGCGGGTAAACCCGCTCCTACGGTCGGCTGTAGGGGCGGGTTTACCCGCGAAGAGGCCAGTACAGGTTTACATCAGCGCGAGGCCAGCGCTGCGTAGCTGTTCATCAGGTTGCGGTAGTTGGGGATACGCTGCGACAGCAGGTTACCCAGCCCTTCGATGTCGTTGCGCCAGTCGCGGTGCAG  >  NC_002947/5984308‑5984603

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑