Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,557,974	C→A	15.4%	intergenic (‑294/+37)	PP_4888 ← / ← purA	methyl‑accepting chemotaxis transducer/adenylosuccinate synthetase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,557,974	0	C	A	15.4%	64.0 / 3.4	26	intergenic (‑294/+37)	PP_4888/purA	methyl‑accepting chemotaxis transducer/adenylosuccinate synthetase
Reads supporting (aligned to +/- strand):  ref base C (10/12);  new base A (2/2);  total (12/14)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.82e-01

CCGCTCCTACAACGGCCTGCGCCCAACCATCGTTGTGTGCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGATCGGCGCGCCAACCAGCTCTTCGATGCGCTTGATGT  >  NC_002947/5557825‑5558111                                                                                                                                                      |                                                                                                                                          ccGCTCCTACAACGGCCTGCGCCCAACCATCGTTGTGTGCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTtc                                                                                                                                           >  1:357181/1‑150 (MQ=255)   gCTCCTACAACGGCCTGCGCCCAACCATCGTTGTGTGCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTtctc                                                                                                                                         >  2:86104/1‑150 (MQ=255)    cTCCTACAACGGCCTGCGCCCAACCATCGTTGTGTGCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCa                                                                                                                                        <  2:326816/150‑1 (MQ=255)                ccTGCGCCCAACCATCGTTGTGTGCCCACATAGCAGCTGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGt                                                                                                                            >  1:206190/1‑150 (MQ=255)                 cTGCGCCCAACCATCGTTGTGTGCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTGAGAAGGGCCGCGGCGtt                                                                                                                           <  1:318549/150‑2 (MQ=255)                                 ttGTGTGCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAgg                                                                                                           >  2:420877/1‑150 (MQ=255)                                  tgtgtgCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGc                                                                                                          <  1:153013/150‑1 (MQ=255)                                  tgtgtgCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGc                                                                                                          >  2:42621/1‑150 (MQ=255)                                    tgtgCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAg                                                                                                        <  1:42621/150‑1 (MQ=255)                                           acaTAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGc                                                                                                 <  1:420877/150‑1 (MQ=255)                                           acaTAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGc                                                                                                 >  1:170720/1‑150 (MQ=255)                                                  aGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACggg                                                                                          <  1:55610/150‑1 (MQ=255)                                                            cccGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGc                                                                                                          >  2:197177/1‑124 (MQ=255)                                                            cccGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGc                                                                                                          <  1:197177/124‑1 (MQ=255)                                                                    tACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGGCCTTCTCAGGGCCGCGGCGTCAGATCAGCATGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGtc                                                                        >  1:527208/1‑150 (MQ=255)                                                                    tACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGCAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGtc                                                                        <  2:357181/150‑1 (MQ=255)                                                                                   aaCGGGTGATTACGGGTGGATATTGGCCAGCATAGACATGCCCACCAATGAAAACGCCGCGGCCCTTCTCAGGGCTGCGGCGTCAGATCAGCTTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCggg                                                         <  2:68430/150‑1 (MQ=255)                                                                                        tGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGt                                                    >  2:328231/1‑150 (MQ=255)                                                                                                   tGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGt                                         <  2:170720/150‑1 (MQ=255)                                                                                                       tatTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTGTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGAt                                     >  1:360905/1‑150 (MQ=255)                                                                                                        atTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGATc                                    <  1:612825/150‑1 (MQ=255)                                                                                                         ttGGCCAGCACAGACATGCCCACACATTAAAACGCCGCGCCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAACGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGATCg                                   <  2:527208/150‑1 (MQ=255)                                                                                                           ggCCAGCACAGACATGCCCACAAATGAAAACGCCGTCTCCGTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGATCGgc                                 <  2:206190/150‑1 (MQ=255)                                                                                                                        aTGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGATCGGCGCGCCAACCAGct                    >  1:289688/1‑150 (MQ=255)                                                                                                                            ccACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGATCGGCGCGCCAACCAGCTCTTc                >  1:561144/1‑150 (MQ=255)                                                                                                                                      tgaCGCCGCGGCCCTGAGAAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACgca                                                                                   >  2:116549/3‑73 (MQ=21)                                                                                                                                      tgaCGCCGCGGCCCTGAGAAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACgca                                                                                   <  1:116549/71‑1 (MQ=21)                                                                                                                                          gccgcGGCCCTGAGAAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGATCGGCGCGCCAACCAGCTCTTCTATGCGCTTGATGt  >  1:566447/1‑150 (MQ=255)                                                                                                                                                      |                                                                                                                                          CCGCTCCTACAACGGCCTGCGCCCAACCATCGTTGTGTGCCCACATAGGAGCGGGTTTACCCGCGAATACGGTAGCGGCGGCAACGGTGGATTACCGGTGGATATTGGCCAGCACAGACATGCCCACAAATGAAAACGCCGCGGCCCTTCTCAGGGCCGCGGCGTCAGATCAGCCTGGAAGGCAGATCAGGCGAACGGGTGACGCAGCACGATGGTCTCGTTGCGGTCCGGGCCGGTCGAAATGATGTCGATCGGCGCGCCAACCAGCTCTTCGATGCGCTTGATGT  >  NC_002947/5557825‑5558111

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑