Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,668,977	C→T	intergenic (‑81/‑55)	hcaR ← / → hcaE	DNA‑binding transcriptional dual regulator HcaR/putative 3‑phenylpropionate/cinnamate dioxygenase subunit alpha

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,668,977	0	C	T	100.0%	55.4 / NA	18	intergenic (‑81/‑55)	hcaR/hcaE	DNA‑binding transcriptional dual regulator HcaR/putative 3‑phenylpropionate/cinnamate dioxygenase subunit alpha
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (10/8);  total (10/8)

GACTTTGCGCTTATCCCTCACCAGTAACGGAACACCGACACAGTTTTCAAGATCGCGGATCTGGCTGCTTAACGAAGGCTGTGAGGTATGCAGTTTTTCCGCCGCACGGGTAAAGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATCCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTTCGGTCGTTGCTGGCTATTTCTCGCCCACGAAAGCCAGATCCCAAAACCCGGTGATTTCTTTAACACCTACATGGG  >  NC_000913/2668732‑2669222                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                      gACTTTGCGCTTATACCTCACCAGTAACGGGACACCGACACAGTTTTCAAGATCGCGGATCTGGCTGCTTAACGAAGGCTGTGAGGTATGCAGTTTTTCCGCCGCACGGGTAAAGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCttct                                                                                                                                                                                                                                                  >  1:221456/1‑249 (MQ=255)                                                       gcgGATCTGGCTGCTTAACGAAGGCTGTGAGGTATGCAGTTTTTCCGCCGCACGGGTAAAGTTCAGTGCCTGCGCCCCTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGAc                                                                                                                                                                                            >  2:120732/1‑251 (MQ=255)                                                                   gctTAACGAAGGCTGTGAGGTATGCAGTTTTTCCGCCGCACGGGTAAAGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAg                                                                                                                                                                                 <  1:127312/250‑1 (MQ=255)                                                                   gctTAACGAAGGCTGTGAGGTATGCAGTTTTTCCGCCGCACGGGTAAAGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACAGCTTATCTTTCAGGATTAAAGAATATGACCGCCCCCTCa                                                                                                                                                                                  <  2:65399/249‑1 (MQ=255)                                                                    ctTAACGAAGGCTGTGAGGTATGCAGTTTTTCAGCCACACGGGTAAAGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACACAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTc                                                                                                                                                                                   >  2:45568/1‑247 (MQ=255)                                                                                   gAGGTATGCAGTTTTTCCGCCGCACGGGTAAAGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAATTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCa                                                                                                                                                                 >  2:114581/1‑250 (MQ=255)                                                                                                        gcACGGGTAAAGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGt                                                                                                                                           >  2:85373/1‑251 (MQ=255)                                                                                                                aaaGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCAc                                                                                                                                   <  1:114581/251‑1 (MQ=255)                                                                                                                  aGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTTCCATCTGATTGACACCCAAAATGGTCGGGTCACTc                                                                                                                                 <  1:70207/251‑1 (MQ=255)                                                                                                                   gTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTcc                                                                                                                                >  1:224562/1‑251 (MQ=255)                                                                                                                                     tGCGACGAAATAGCGTAAATGACGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGAccc                                                                                                              >  2:18020/1‑251 (MQ=255)                                                                                                                                                                       aCCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTTc                                                                            >  1:37666/1‑251 (MQ=255)                                                                                                                                                                                     aTCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGAATAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAGCTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATGCCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTACGGTCGTTGCTGGCt                                                              <  2:221456/251‑1 (MQ=255)                                                                                                                                                                                                               aaTTAACTATTTCACATATTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTTCGGTCGTTGCTGGCTATTTCTCGCCCACGAAAGCCAGATcc                                    <  2:15565/251‑1 (MQ=255)                                                                                                                                                                                                                                atTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTTCGGTCGTTGCTGGCTATTTCTCGCCCACGAAAGCCAGATCCCAAAACCCGGTGAttt                    <  1:194543/250‑1 (MQ=255)                                                                                                                                                                                                                                atTAGCAACCAACCAGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTTCGGTCGTTGCTGGCTATTTCTCGCCCACGAAAGCCAGATCCCAAAACCCGGTGATTTc                   <  2:150487/251‑1 (MQ=255)                                                                                                                                                                                                                                           accaGCAACATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTTCGGTCGTTGCTGGCTATTTCTCGCCCACGAAAGCCAGATCCCAAAACCCGGTGATTTCTTTAACACCt         >  1:14110/1‑250 (MQ=255)                                                                                                                                                                                                                                                 aaCATTCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTTCGGTCGTTGCTGGCTATTTCTCGCCCACGAAAGCCAGCTCCCAAAACCCGGTGATTTCTTTAACCCCTACATggg  >  2:15075/1‑251 (MQ=255)                                                                                                                                                                                                                                                      |                                                                                                                                                                                                                                                      GACTTTGCGCTTATCCCTCACCAGTAACGGAACACCGACACAGTTTTCAAGATCGCGGATCTGGCTGCTTAACGAAGGCTGTGAGGTATGCAGTTTTTCCGCCGCACGGGTAAAGTTCAGTGCCTGCGCCACTGCGACGAAATAGCGTAAATGCCGTAGTTCCATCACCTTCCCCTTGTTATCGAAAAAACGTCTCAGCTGGTAGAAATTAACTATTTCACATATTAGCAACCAACCAGCAACATCCTTATGGCACAAAAATAGAAGGTCAATACATCTTATCTTTCAGGATTAAAAAATATGACCACACCCTCAGATTTGAACATTTACCAACTGATTGACACCCAAAATGGTCGGGTCACTCCGCGTATTTATACCGACCCGGATATTTACCAACTGGAGCTTGAGCGTATTTTCGGTCGTTGCTGGCTATTTCTCGCCCACGAAAGCCAGATCCCAAAACCCGGTGATTTCTTTAACACCTACATGGG  >  NC_000913/2668732‑2669222

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑