Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,597,592	A→T	17.4%	M180L (ATG→TTG)	PP_4920 →	lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,597,592	0	A	T	17.4%	44.5 / 5.0	23	M180L (ATG→TTG)	PP_4920	lipoprotein
Reads supporting (aligned to +/- strand):  ref base A (11/8);  new base T (2/2);  total (13/10)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.46e-01

GCCCGGGCGCGGCTTCATCAACTATTCACGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACGGCGCGGTAGTGGTCAAGTATGAGGTCTATGCCATCGC  >  NC_002947/5597465‑5597710                                                                                                                                |                                                                                                                       gCCCGGGCGCGGCTTCATCAACTATTCACGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTg                                                                                                                <  1:225147/136‑1 (MQ=255)         gcgGCTTCATCAACTATTCACGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGTTGAGCGTGGGAATGGa                                                                                                        >  1:122351/1‑136 (MQ=255)         gcgGCTTCATCAACTATTCACGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGTTGAGCGTGGGAATGGa                                                                                                        >  1:124729/1‑136 (MQ=255)                           cACGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATg                                                                                                >  2:475526/1‑126 (MQ=255)                           cACGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATg                                                                                                <  1:475526/126‑1 (MQ=255)                            aCGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTc                                                                                     >  1:24348/1‑136 (MQ=255)                            aCGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTc                                                                                     >  1:489607/1‑136 (MQ=255)                                   cttgACAAGGTGCTGAACCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTTGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGTGAATGGACAAGGATGCCGAGTTCGTCAAGACCt                                                                              <  2:260860/133‑1 (MQ=255)                                   cTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACATTCTGGAAAACCGTCGTATAATCTCACCGTGCCTGTCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGAcat                                                                              <  2:258452/136‑3 (MQ=255)                                               cTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGa                                                                  >  1:102876/1‑136 (MQ=255)                                                   cccTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAATCCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGATATc                                                              >  2:49342/1‑136 (MQ=255)                                                       gCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGTTGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATcgccg                                                          <  2:122351/136‑1 (MQ=255)                                                       gCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGTTGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATcgccg                                                          <  2:124729/136‑1 (MQ=255)                                                          ggACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCAc                                                       >  1:170354/1‑136 (MQ=255)                                                                                    acacCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACGGCGCGGTAGt                             <  1:120728/136‑1 (MQ=255)                                                                                       ccTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACGGCGCGGTAGTGGt                          >  2:282708/1‑136 (MQ=255)                                                                                              gAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACGGCGCGGTAGTGGTCAAGTAt                   >  2:504180/1‑136 (MQ=255)                                                                                              gAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACGGCGCGGTAGTGGTCAAGTAt                   >  2:119971/1‑136 (MQ=255)                                                                                                     gTCGAAGAATCGCACCGTGCCTTGCTGATTAGCGTGGGAATGGACTAGGATGCCGAGTTCGTCTAGACCTGGCCGTTCAAGAAATCGCCGCAGGTCGCCCTGACGTACGGCGCGGTAGTGGTCAAGTATGATGTCt            <  1:71139/136‑1 (MQ=255)                                                                                                     gTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACg                                       <  2:489716/109‑1 (MQ=255)                                                                                                     gTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACg                                       >  1:489716/1‑109 (MQ=255)                                                                                                         aagaaTCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACGGCGCGGTAGTGGTCAAGTATGAGGTCTATGc        >  1:461931/1‑136 (MQ=255)                                                                                                               ggCACCGTGCCTGGCTGATGAGGGGGGGAATGGACAAGGATGAGGAGTTCGGCTAGTGCTGGCGGTTCTAGATATCGCGGCTCGTCGCCGTGACGTACGGCGCGGTTGTGGTGAAGTTTGAGGTCTATGCCATcgc  <  2:246673/135‑1 (MQ=255)                                                                                                                                |                                                                                                                       GCCCGGGCGCGGCTTCATCAACTATTCACGCAAACTGGACAAGGTGCTGACCCTGCAGGACATGCTGGTGCCCGGCCAGGAAGACACCTTCTGGAAAACCGTCGAAGAATCGCACCGTGCCTGGCTGATGAGCGTGGGAATGGACAAGGATGCCGAGTTCGTCAAGACCTGGCCGTTCAAGAAATCGCCGCACGTCGCCCTGACGTACGGCGCGGTAGTGGTCAAGTATGAGGTCTATGCCATCGC  >  NC_002947/5597465‑5597710

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑