Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,816,546	A→T	27.6%	G106G (GGT→GGA)	cpxR ←	two‑component system regulator CpxR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,816,546	0	A	T	27.6%	29.1 / 8.4	18	G106G (GGT→GGA)	cpxR	two‑component system regulator CpxR
Reads supporting (aligned to +/- strand):  ref base A (5/8);  new base T (2/3);  total (7/11)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.82e-01

GCTGCGCCCCAGCGCGCCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGCTCCAGGCCGGCAATGCGGTCGATGTTGTCACCGCGTGCTGTCAGCAGCAGCACCGGCACCTGACTACGTGCACGCACGCGGCGCAGCACCTCGATACCGGA  >  NC_002947/3816400‑3816689                                                                                                                                                   |                                                                                                                                                gCTGCGCCCCAGCGCGCCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCTccc                                                                                                                                              >  2:44891/1‑149 (MQ=255)  cTGCGCCCCAGCGCGCCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCTGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCgg                                                                                                                                             <  1:375489/150‑1 (MQ=255)  cTGCGCCCCAGCGCGCCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCgg                                                                                                                                             >  2:41050/1‑150 (MQ=255)    gcgcCCCAGCGCGCCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGga                                                                                                                                           <  1:405810/150‑1 (MQ=255)       ccccAGCGCGCCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGagag                                                                                                                                        >  2:234830/1‑150 (MQ=255)          cAGCGCGCCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGAGAGCTg                                                                                                                                     <  1:188986/150‑1 (MQ=255)            gcgcgcCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACACATCAGGTATGGCTGCAAGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGCAGAGCTggg                                                                                                                                   <  2:387714/150‑1 (MQ=255)             cgcgcCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCTCCCGGTGAGCTggtg                                                                                                                                  <  1:419259/150‑3 (MQ=255)              gcgcCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCTCCCGGTGAGCTggtgg                                                                                                                                 <  1:44891/150‑4 (MQ=255)                                  cacaTTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGcc                                                                                                             >  1:284102/1‑150 (MQ=255)                                     aTTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGccccc                                                                                                          <  1:41050/150‑1 (MQ=255)                                        ttCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGc                                                                                                       >  1:412523/1‑150 (MQ=255)                                                                      aCCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGCTCCAGGCCGGCAATGCGGTCGATGTTGTCa                                                                         <  1:198607/150‑1 (MQ=255)                                                                                                         cTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGCTCCAGGCCGGCAATGCGGTCGATGTTGTCACCGCGTGCTGTCAGCAGCAGCACCGGCACCTGACt                                      <  1:234830/150‑1 (MQ=255)                                                                                                                                          caccaGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGCTCCAGGAAGGCAATGGGGGCGATGTTGTCACCGCGTGCTGTCAGCAGCAGCACCGGCACATGACTACGTGCACGCACGCGGCGCAGCACCTCGATAcc     >  2:242176/1‑150 (MQ=255)                                                                                                                                             caGCTCTCCCGGTGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGCTCCa                                                                                                   <  2:24393/53‑1 (MQ=25)                                                                                                                                             caGCTCTCCCGGTGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGCTCCa                                                                                                   >  1:24393/1‑53 (MQ=25)                                                                                                                                             caGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGCTCCAGGCCGGCAATGCGGTCGATGTTGTCACCGCGTGCTGTCAGCAGCAGCACCGGCACCTGACTACGTGCACGCACGCGGCGCAGCACCTCGATACCGga  <  2:240410/150‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                GCTGCGCCCCAGCGCGCCTCGCGCCGCCCCGGCCACATTTTCAATGCGCCACTGCGTACCTGTTCAGGTACCTCGGGCGCGCTGGTTTCACCCATCAGGTATGGCTGCACGCGACGCAGTATTGCCCGCAGGCGTGCCACCAGCTCACCGGGAGAGCTGGGCTTGGGCACATAGTCATCGGCCCCCAGCTCCAGGCCGGCAATGCGGTCGATGTTGTCACCGCGTGCTGTCAGCAGCAGCACCGGCACCTGACTACGTGCACGCACGCGGCGCAGCACCTCGATACCGGA  >  NC_002947/3816400‑3816689

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑