Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	CP000730	1,797,772	G→C	100%	R7G (CGC→GGC)	phoR ←	sensor histidine kinase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	CP000730	1,797,772	0	G	C	100.0%	47.7 / NA	16	R7G (CGC→GGC)	phoR	sensor histidine kinase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (7/9);  total (7/9)
Rejected as polymorphism: Frequency below/above cutoff threshold.
Rejected as polymorphism: Variant not supported by required number of reads on each strand.

TAAATATATGATCTTGCATCTGTTGCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCGGTGGTGAAACTTCATCATTGTTCTTTAGGTCTTTCCAATTTATAGCCTAAGCCACGCACAGTTTTAATAAGTTGTGGCTTCTTAGGATTATCTTCTAATTTATCTCTTAAATGACTGATATGTACATCA  >  CP000730/1797636‑1797901                                                                                                                                         |                                                                                                                                  taaataTATGATCTTGCATCTGTTTCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCcgtg                                                                                                                                <  1:47489/140‑1 (MQ=255) taaataTATGATCTTGCATCTGTTGCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCcgtg                                                                                                                                >  1:231858/1‑140 (MQ=255)       tatGATCTTTCATCTGTTGCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGaaa                                                                                                                          <  1:248994/140‑1 (MQ=255)       tatGATCTTGCATCTGTTGCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGaaa                                                                                                                          <  1:45689/140‑1 (MQ=255)        atGATTTTGCATCTGTTGCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGAAAc                                                                                                                         <  1:18077/140‑1 (MQ=255)                gCATCTGTTGCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGAAACTTcatcat                                                                                                                 >  1:120125/1‑140 (MQ=255)                   tCTGTTGCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGAAACTTCATCATTGt                                                                                                              <  1:75342/140‑1 (MQ=255)                            agagCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGAAACTTCATCATTGTTCTTTAGGt                                                                                                     <  1:141785/140‑1 (MQ=255)                              agCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGAAACTTCATCATTGTTCTTTAGGTCt                                                                                                   <  2:231858/140‑1 (MQ=255)                                  tGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATACTAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGCTGAAACTTCATCATTCTTCTTTAGGTCTTTcc                                                                                               >  2:275735/1‑140 (MQ=255)                                                  aTAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTATTCTACTGCTTATCAATAACATTAAGCCGTGGTGAAACTTCATCATTGTTCTTTATGTCTTTCCAATTTATAGCCTAAGc                                                                               >  1:20184/1‑140 (MQ=255)                                                                 tGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGAATCTTCATCATTGTTCTTTAGGTCTTTCCAATTTCTAGCCTAACCCACGCACAGTTTtaa                                                                <  1:145546/140‑1 (MQ=255)                                                                     aGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGAAACTTCATCATTGTTCTTTAGGTCTTTCCAATTTATAGCCTAAGCCACGCACAGTTTTAATAAg                                                            >  2:107400/1‑140 (MQ=255)                                                                       cGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCCGTGGTGAAACTTCATCATTGTTCTTTAGGTCTTTCCAATTTATAGCCTAAGCCAAGCACAGTTTTAATAAGtt                                                          >  1:57241/1‑140 (MQ=255)                                                                                 aatGCCTAATGAAACAAAACTGATAATTAATATACTACTTATCAATAACATTAAGCCGTAGTTAAACTTCATCATTGTTCTTTAGGTCTTTCCAATTTATAGCCTAAGTCACGCACAGTTTTAATAAGTTGTGGcttctt                                                <  2:256234/140‑1 (MQ=255)                                                                                                                    tGCTTATCATGAACATTAAGCCGTGGTGAAACTTCATCATTGTTCATTCGGGGCTTACAATTTATCGTCTAAGCCACGCACAGTTTTAATAAGTTTTGGCGGCTTAGGATTATCTACTAATTTATCTCTTAAATGACTGa             >  1:212652/1‑140 (MQ=255)                                                                                                                              tAACATTAAGCCGTGGTGAAACTTCATCATTGTTCTTTAGGTCTTTCCAATTTATAGCCTAGGCCACGCACAGTTTTAATAAGTTGTGGCTTCTTAGGAATATCTTCTAATTTATCTCTTAAATAACTGATATGTACATc   >  1:257261/1‑140 (MQ=255)                                                                                                                               aaCATTAAGCCGTGGTGAAACTTCATCATTGTTCTTTAGGTCTTTCCAATTTATAGCCTAAGCCACGCACAGTTTTAATAAGTTGTGGCTTCTTAGGATTATCTTCTAATTTATCTCTTAAATGACTGATATGTACATca  <  2:227848/140‑1 (MQ=255)                                                                                                                                         |                                                                                                                                  TAAATATATGATCTTGCATCTGTTGCTAGAGCTTGTTCGTGTTTTTCTGATAAAACATATGTGATGGAAGCGTGAATAATAATGCCTAATGTAACAAAACTGATAATTAATATACTGCTTATCAATAACATTAAGCGGTGGTGAAACTTCATCATTGTTCTTTAGGTCTTTCCAATTTATAGCCTAAGCCACGCACAGTTTTAATAAGTTGTGGCTTCTTAGGATTATCTTCTAATTTATCTCTTAAATGACTGATATGTACATCA  >  CP000730/1797636‑1797901

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑