Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	4,586,030	2 bp→TC	100%	intergenic (+113/+101)	PP_4061 → / ← PP_4063	hypothetical protein/long‑chain fatty acid‑‑CoA ligase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	4,586,030	0	C	T	100.0%	36.8 / NA	13	intergenic (+113/+102)	PP_4061/PP_4063	hypothetical protein/long‑chain fatty acid‑‑CoA ligase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (2/11);  total (2/11)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.
*	NC_002947	4,586,031	0	T	C	100.0%	35.5 / NA	13	intergenic (+114/+101)	PP_4061/PP_4063	hypothetical protein/long‑chain fatty acid‑‑CoA ligase
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (2/11);  total (2/11)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

GCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTCTGC‑G‑GTAAACCCGCTCCTACCAGGGA‑CGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTAC  >  NC_002947/4585930‑4586103                                                                                                     ||                                                                             gCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATgcgg                             <  1:82555/149‑1 (MQ=39)            aaCAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGTCGCCGGCCTTGAATGCGGCGCTGcccc                    <  1:3512/148‑1 (MQ=38)             aCAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTgg                 <  4:127632/149‑1 (MQ=39)               aGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTa               <  3:235960/149‑1 (MQ=39)                gCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAg              <  7:155275/149‑1 (MQ=39)                gCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAg              >  8:155275/1‑149 (MQ=39)                         cgcTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCggg       <  4:121726/147‑1 (MQ=38)                         cgcTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCggg       <  7:139934/147‑1 (MQ=38)                          cctgctCCATTGAAAGGCTGACGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGC‑GCGTAAACCCGCTCCTACCAGCGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGttt    <  4:99872/148‑1 (MQ=38)                           ctgctCCATTGAAAGGTTGAGGATGTCCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTa   <  5:66604/149‑1 (MQ=38)                              ctCCATTGAAAGGTTGAGGATTTCCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTAc  <  3:274528/147‑1 (MQ=37)                                                        ggTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATgcg                              >  1:271275/1‑93 (MQ=25)                                                        ggTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTTCGCGG‑GTAAACCCGCTCCTACCAGGGACCGT‑GCCGGCCTTGAATgcg                              <  2:271275/93‑1 (MQ=25)                                                                                                     ||                                                                             GCACCGGCGTGAACAGCTGATCTGCGCTGCTCCATTGAAAGGTTGAGGATGACCGGGTGCTTGGCAAGGTGAAGATCTTGCATTGATCGGGCCGGCCTCTCTGC‑G‑GTAAACCCGCTCCTACCAGGGA‑CGT‑GCCGGCCTTGAATGCGGCGCTGCCCCTGGTAGGAGCGGGTTTAC  >  NC_002947/4585930‑4586103

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑