Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	3,723,352	C→T	24.4%	A189V (GCC→GTC)	PP_3288 →	universal stress protein family protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	3,723,352	0	C	T	24.4%	18.6 / 5.5	17	A189V (GCC→GTC)	PP_3288	universal stress protein family protein
Reads supporting (aligned to +/- strand):  ref base C (7/4);  new base T (2/2);  total (10/7)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.46e-01

ACCCTTGCACCTGGTACACAAGGCCAGCCATGCGTTGCCACGCAGGGTTCTGGCGGCGGTGGACCTGTCCAGGCCGGAGGATCAGTTTGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGTTCCTGTTCGATTCAAACGATGCCCAGACCTTGCATGACGCTCAA  >  NC_002947/3723206‑3723470                                                                                                                                                   |                                                                                                                       aCCCTTGCACCTGGTACACAAGGCCAGCCATGCGTTGCCACGCAGGGTTCTGGCGGCGGTGGACCTGTCCAGGCCGGAGGATCAGTTTGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCa                                                                                                                     >  1:393333/1‑150 (MQ=255)            tGGTACACAAGGCCAGCCATGCGTTGCCACGCAGGGTTCTGGCGGCGGTGGACCTGTCCAGGCCGGAGGATAAGTTTGAAGGCTTCAACGACCAGACCATCAGCGAAGCGCTGAAGCTGACATTACAGTGCAATGCCCAGATCGAGTTGc                                                                                                          >  2:247730/1‑150 (MQ=255)                        ccagccaTGCGTTGCCACGCAGGGTTCTGGCGGCGGTGGACCTGTCCAGGCCGGAGGATCAGTTTGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGACCAGATCGAGTTGCTGTACGCCTACg                                                                                              >  1:288059/1‑150 (MQ=255)                                                            tGGACCTGTCCAGGCCGGAGGATCAGTTTGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCAGGTACCTGGACGCCGGCGGCAGcc                                                          >  2:143421/1‑150 (MQ=255)                                                               aCCTGTCCAGGCCGGAGGATCAGTTTGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTAc                                                                             >  2:71404/1‑128 (MQ=255)                                                               aCCTGTCCAGGCCGGAGGATCAGTTTGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTAc                                                                             <  1:71404/128‑1 (MQ=255)                                                                          ccGGAGGATCAGTTTGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGTTc                                            <  2:393333/150‑1 (MQ=255)                                                                                      tttGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGTTCCTGTTCGATTCa                                >  2:390457/1‑150 (MQ=255)                                                                                           aGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGTTCCTGTTCGATTCAAACGa                           <  1:127912/150‑1 (MQ=255)                                                                                                              atcaGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGACCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGTTCCTGTTCGATTCAAACGATGCCCAGACCTTGCATGAc        <  2:288059/150‑1 (MQ=255)                                                                                                               tcaGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCTGCCGCCggcgt                                                     <  1:315602/104‑4 (MQ=255)                                                                                                               tcaGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCTGCCGCCggcgt                                                     >  2:315602/1‑101 (MQ=255)                                                                                                                    gAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGTTCCTGTTCGATTCAAACGATGCCCAGACCTTGCATGACGCTCaa  >  1:253293/1‑150 (MQ=255)                                                                                                                                          actGCAATGTCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGt                                              >  1:231930/3‑84 (MQ=255)                                                                                                                                          actGCAATGTCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGt                                              <  2:231895/82‑1 (MQ=255)                                                                                                                                          actGCAATGTCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGt                                              <  2:231930/82‑1 (MQ=255)                                                                                                                                          actGCAATGTCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGt                                              >  1:231895/3‑84 (MQ=255)                                                                                                                                                   |                                                                                                                       ACCCTTGCACCTGGTACACAAGGCCAGCCATGCGTTGCCACGCAGGGTTCTGGCGGCGGTGGACCTGTCCAGGCCGGAGGATCAGTTTGAAGGCTTCAACGACCAGATCATCAGCGAAGCGCTGAAGCTGACATTGCAGTGCAATGCCCAGATCGAGTTGCTGTACGCCTACGATTTGGGTTCCATGTACCTGGACGCCGGCGGCAGCCGGGAACATTCGTTCCTGTTCGATTCAAACGATGCCCAGACCTTGCATGACGCTCAA  >  NC_002947/3723206‑3723470

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: ‑