Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	6,015,921	T→A	31.1%	T274S (ACG→TCG)	PP_5728 ←	rhs repeat‑associated core domain‑containing protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	6,015,921	0	T	A	31.1%	18.0 / 7.0	16	T274S (ACG→TCG)	PP_5728	rhs repeat‑associated core domain‑containing protein
Reads supporting (aligned to +/- strand):  ref base T (5/6);  new base A (2/3);  total (7/9)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.64e-01

ACAGCCTGGTCGATGGAGCAGAGGTGCATGGGGCCTCCTGAAACATCCGTGGGTTCAGGGGTTGGACATGAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACCGCGAACCCAGGACTCAGACTCATGCACGTAAAACCCTACTA  >  NC_002947/6015792‑6016070                                                                                                                                  |                                                                                                                                                      aCAGCCTGGTCGATGGAGCAGAGGTGCATGGGGCCTCCTGAAACATCCGTGGGTTCAGGGGTTGGACATGAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGaa                                                                                                                                   <  2:371120/150‑1 (MQ=255)                    agagGTGAATAGAACCTCCTGAAACATCCGTGGGTTCAGGGGTTGGACATGAGATCAAGCGGGTTGGTTGCCTAGGGCAAACTTTGTTCAACCCCACCTTACTTTAAGTGAAAAAAAAAAAAAAAATGGAAATACCACTTCTTCGCTcac                                                                                                                <  2:561643/150‑1 (MQ=255)                                      ctGAAACATCCGTGGGTTCAGGGGTTGGACATGAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATAcgc                                                                                              >  1:9822/1‑150 (MQ=255)                                                     gTTCAGGGGTTGGACATGAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGc                                                                               <  2:9822/150‑1 (MQ=255)                                                          ggggTTGGACATGAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGACTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTGTTATCGATCGCTATCg                                                                          >  1:259284/1‑150 (MQ=255)                                                          ggggTTGGACATGAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGACTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCg                                                                          >  1:259287/1‑150 (MQ=255)                                                             gTTGGACATGAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCAt                                                                       >  2:296480/1‑150 (MQ=255)                                                                      gAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGaa                                                              <  1:296480/150‑1 (MQ=255)                                                                                          ccTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACcg                                          >  1:446373/1‑150 (MQ=255)                                                                                            tAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACcgcg                                        >  1:477966/1‑150 (MQ=255)                                                                                                         ggTCAACCCCACCTTACTTTAAGCGACTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTGTTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACCGCGAACCCAGgactca                           <  2:259284/150‑1 (MQ=255)                                                                                                         ggTCAACCCCACCTTACTTTAAGCGACTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACCGCGAACCCAGgactca                           <  2:259287/150‑1 (MQ=255)                                                                                                               ccccACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACCGCGAACCCAGgactcagactca                     <  2:137681/150‑1 (MQ=255)                                                                                                                            tAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACCGCGAACCCAGGACTCAGACTCATGCACGTAAAAcc        <  2:477966/150‑1 (MQ=255)                                                                                                                                 gTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGaa                                                              >  2:401413/1‑91 (MQ=255)                                                                                                                                 gTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGaa                                                              <  1:401413/91‑1 (MQ=255)                                                                                                                                  tCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACCGCGAACCCAGGACTCAGACTCATGCACGTAAAACCctacta  <  2:446373/150‑1 (MQ=255)                                                                                                                                  |                                                                                                                                                      ACAGCCTGGTCGATGGAGCAGAGGTGCATGGGGCCTCCTGAAACATCCGTGGGTTCAGGGGTTGGACATGAGCTCAAGCGGGTTGGTTGCCTAGGGCAAACTCTGGTCAACCCCACCTTACTTTAAGCGTCTTACTAATTAAAAATGGAAATACCACTTCTTCGCTCACATGAACCTTGTGATACGCGCTATTATCGATCGCTATCGCATTTTTATGAACATACCAATAGTCCTTACCGCGAACCCAGGACTCAGACTCATGCACGTAAAACCCTACTA  >  NC_002947/6015792‑6016070

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑