Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,714,468	C→A	28.6%	L14L (CTG→CTT)	PP_4166 ←	hypothetical protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,714,468	0	C	A	28.6%	22.1 / 5.0	14	L14L (CTG→CTT)	PP_4166	hypothetical protein
Reads supporting (aligned to +/- strand):  ref base C (7/3);  new base A (2/2);  total (9/5)
Fisher's exact test for biased strand distribution p-value = 5.80e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.44e-01

TGTTGCCTCGCAGCAGGGTCCAGCCCAGGGTTGTCGTTCACCTTGCGCATCAGGTGGTAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTCGCCGTTCCCTGATGTTTGCCATGTGGCAACGCTAGCAAGCGGTGGTGAAGCGCGACAACTGACAAAAATGCCAGTTGCCT  >  NC_002947/4714334‑4714603                                                                                                                                       |                                                                                                                                        tgttgCCTCGCAGCAGGGTCCAGCCCAGGGTTGTCGTTCACCTTGCGCATCAGGTGGTAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCa                                                                                                                                        >  2:3595/1‑136 (MQ=255)                                tGTCGTTCACCTTGCGCATCAGGTGGTAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAg                                                                                                         >  2:255723/1‑136 (MQ=255)                                     ttCACCTTGCGCATCAGGTGGTAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCAAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCa                                                                                                    >  1:291777/1‑136 (MQ=255)                                     ttCACCTTGCGCATCAGGTGGTAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCAAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCa                                                                                                    >  1:293888/1‑136 (MQ=255)                                               gcATCAGGTGGTAAAGCTTAGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCAcc                                                                                          >  2:207832/1‑136 (MQ=255)                                                 aTCAGGTGGTAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCAcccc                                                                                        >  2:33826/1‑136 (MQ=255)                                                       tggtAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTc                                                                                  <  1:3595/136‑1 (MQ=255)                                                       tggtAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTc                                                                                  <  1:59946/136‑1 (MQ=255)                                                       tggtAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCAAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTc                                                                                  <  2:291777/136‑1 (MQ=255)                                                       tggtAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCAAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTc                                                                                  <  2:293888/136‑1 (MQ=255)                                                        ggtAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTCg                                                                                 <  1:137065/136‑1 (MQ=255)                                                                  ggCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTCGCCGTTCCCTg                                                                       >  1:365035/1‑136 (MQ=255)                                                                                cACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTACAGGGAGCGCAACAGTTCCAGCATTTAACCCCTCATTCGCCGTTCACTGATGATTGCCAtgtg                                                         >  2:393398/1‑136 (MQ=255)                                                                                                                               aCCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACACCTCATTCGCCGTTCCCTGATGTTTGCCATGTGGCAACGCTAGCAAGAGGTGGTGAAGCGCGACAACTCACAAAAATGcc          >  2:293178/1‑136 (MQ=255)                                                                                                                                       cAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTCGCCGTTCCCTGATGTTTGCCATGTGGCAACGCTAGCAAGCGGTGGTGAAGCGCGACAACTGACAAAAATGCCAGTTGCCt  <  1:393398/136‑1 (MQ=255)                                                                                                                                       |                                                                                                                                        TGTTGCCTCGCAGCAGGGTCCAGCCCAGGGTTGTCGTTCACCTTGCGCATCAGGTGGTAAAGCTTGGCATCGGCCGATTCACGCAGCAGGCTGTATTGGGCGAAATCCAGCGAAGTACCTTGGTCAACCTGTTCCAGGGTGGGTTGCAGGTCCAGGGAGCGCAACAGTTCCAGCATTTCACCCCTCATTCGCCGTTCCCTGATGTTTGCCATGTGGCAACGCTAGCAAGCGGTGGTGAAGCGCGACAACTGACAAAAATGCCAGTTGCCT  >  NC_002947/4714334‑4714603

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: ‑