Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,866,744	G→A	Q270* (CAG→TAG)	rpoS ←	RNA polymerase sigma factor RpoS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,866,744	0	G	A	93.3%	96.1 / NA	30	Q270* (CAG→TAG)	rpoS	RNA polymerase sigma factor RpoS
Reads supporting (aligned to +/- strand):  ref base G (0/0);  major base A (10/18);  minor base C (2/0);  total (12/18)
Fisher's exact test for biased strand distribution p-value = 1.52e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

CAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTGTTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGCATACGGCTGACGTCATCAACTGGCTTATCCAGTTGCTCTGCGATCTCTTCCGCACTTGGTTCATGGTCCAGC  >  NC_000913/2866510‑2866988                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                     ccgAAAAGGCCAGCCTCGCTTGAGACCGGCCTTTCTGACAGATGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACCGCGCAGGCCTTCAACCTGCATCTGGCGAACACGTTCCCGGGTGAGGCCAATTTCACGACCTACAGCTTCCAGTGGTGCCGCTTCGTCCCCCAGCCAACCGAATCGACGTGCCCGCCCTTCACGCTCTTCGGCGTTCATCTCg                                                                                                                                                                                                                                      >  1:50550/3‑251 (MQ=255)  aGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCTCGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCGTCGTACCCCAGCAAACCGAATCGACGTGCGAGCACTTCACGTTATTTGGCGTTCATCTCGa                                                                                                                                                                                                                                     <  1:82646/251‑1 (MQ=255)      aaGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAg                                                                                                                                                                                                                                 <  1:103024/251‑1 (MQ=255)              ccTCGCTTGCGACTGGCCTTTCTGACAGATGCCTACTTACTCGCGG‑AAAAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGATCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTg                                                                                                                                                                                                                          >  2:148806/1‑250 (MQ=255)                       agaCTTGCATTTCGGACAGATGCTTACTTACTCGCGA‑ACCGGCTCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAATAGCCATTTGACGAttctat                                                                                                                                                                                                                <  2:12965/251‑6 (MQ=255)                         aCTGGCCTTTCTGACAGATGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGc                                                                                                                                                                                                              <  2:247750/251‑1 (MQ=255)                            ggCCTTTCTGACAGATGCTTACGTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGTGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATGTGACGATGCTCTGCtt                                                                                                                                                                                                            <  2:473/250‑1 (MQ=255)                               atttctgctagctGCTTACTTACTCGCGGCAAC‑GCGCTTCGATATTCAGCCCCTGAGTTTACAGGATTTCGCGCAAACGCCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGTCGAGCCAGCACTTCACGCTCTTTGGCGCTCAGCTCGACCAGCCATTTGACGATGCTCTGCTTCat                                                                                                                                                                                                         >  2:297034/13‑250 (MQ=255)                                    tGACAGATGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTc                                                                                                                                                                                                   >  1:27945/1‑251 (MQ=255)                                     gACAGATGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCa                                                                                                                                                                                                  <  1:53041/251‑1 (MQ=255)                                           tGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGc                                                                                                                                                                                            >  2:174090/1‑251 (MQ=255)                                            gCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCg                                                                                                                                                                                           <  2:53256/251‑1 (MQ=255)                                                                               aGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCGCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGc                                                                                                                                                         <  1:216256/251‑1 (MQ=255)                                                                                             cAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCCCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGc                                                                                                                                            >  1:281498/1‑250 (MQ=255)                                                                                                gATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACg                                                                                                                                        <  2:194688/251‑1 (MQ=255)                                                                                                     cgcgCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCtttt                                                                                                                                   <  1:251206/251‑1 (MQ=255)                                                                                                                     gCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCTACGCTTTTTCGGAATCACCAccc                                                                                                                    >  1:246132/1‑250 (MQ=255)                                                                                                                                gAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTc                                                                                                         <  1:83218/250‑1 (MQ=255)                                                                                                                                 aaTCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTAACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCt                                                                                                        >  1:271266/1‑250 (MQ=255)                                                                                                                                      ggCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCCCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTAcc                                                                                                     <  2:281498/248‑1 (MQ=255)                                                                                                                                                     gggTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGtt                                                                                    >  1:92086/1‑250 (MQ=255)                                                                                                                                                              cAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCTCCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGc                                                                          <  1:304118/251‑1 (MQ=255)                                                                                                                                                               aaTTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGc                                                                          >  2:91839/1‑250 (MQ=255)                                                                                                                                                               aaTTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGCa                                                                         <  2:43541/251‑1 (MQ=255)                                                                                                                                                                       gACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCTACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGCATACGGCTg                                                                 <  2:246132/251‑1 (MQ=255)                                                                                                                                                                                                    tACCCCTGCAAACCGCATACACCTGCCAGAACTTCCCACTATTTGGCGTTCAGCTCGAACAGCAATTTGACGATGCTCTGCTTCATCTCGTCATCTTGCGTGGTATCTTCCGGACCGTTATCTTTTTCATCGGCCAGGACGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGCATACGGCTGACGTCATCAACTGGCTTATCCAGTTGctc                                    >  2:273295/1‑251 (MQ=255)                                                                                                                                                                                                          atcAAACCGAATCGTCCTGCCAGCACTTCACTCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTGTTCAGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCGCGTTAAGACGAAGCATACGGCTGACGTCATCAACTGGCTTATCTAGTTGCTCTGCGAt                              <  2:265956/249‑1 (MQ=255)                                                                                                                                                                                                                      cGACGTGCCAGCACTTCACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGCATACGGCTGACGTCATCAACTGGCTTATCCAGTTGCTCTGCGATCTCTTCCGCACt                  >  1:142854/1‑251 (MQ=255)                                                                                                                                                                                                                                      cACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGCATACGGCTGACGTCATCAACTGGCTTATCCAGTTGCTCTGCGATCTCTTCCGCACTTGGTTCATGGTCCAg   <  1:148041/250‑1 (MQ=255)                                                                                                                                                                                                                                      cACGCTATTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGCATACGGCTGACGTCATCAACTGGCTTATCCAGTTGCTCTGCGATCTCTTCCGCACTTGGTTCATGGTCCAGc  <  1:174090/251‑1 (MQ=255)                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                     CAGAAAAGGCCAGCCTCGCTTGAGACTGGCCTTTCTGACAGATGCTTACTTACTCGCGG‑AACAGCGCTTCGATATTCAGCCCCTGCGTTTGCAGGATTTCGCGCAAACGGCGCAGGCCTTCAACCTGAATCTGGCGAACACGTTCACGGGTGAGGCCAATTTCACGACCTACATCTTCCAGTGTTGCCGCTTCGTACCCCAGCAAACCGAATCGACGTGCCAGCACTTCACGCTGTTTGGCGTTCAGCTCGAACAGCCATTTGACGATGCTCTGCTTCATATCGTCATCTTGCGTGGTATCTTCCGGACCGTTCTCTTTTTCATCGGCCAGGATGTCCAGCAACGCTTTTTCGGAATCACCACCCAGCGGGGTGTCTACCGAGGTAATGCGCTCGTTAAGACGAAGCATACGGCTGACGTCATCAACTGGCTTATCCAGTTGCTCTGCGATCTCTTCCGCACTTGGTTCATGGTCCAGC  >  NC_000913/2866510‑2866988

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑