Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,196,232	C→T	T370T (ACC→ACT)	icd →	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,196,232	0	C	T	91.7%	15.5 / ‑3.3	12	T370T (ACC→ACT)	icd	isocitrate dehydrogenase; e14 prophage attachment site; tellurite reductase
Reads supporting (aligned to +/- strand):  ref base C (0/1);  new base T (8/3);  total (8/4)
Fisher's exact test for biased strand distribution p-value = 3.33e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.41e-01

GTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGG  >  NC_000913/1196173‑1196267                                                            |                                    gTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGc                             >  1:213322/1‑68 (MQ=255)      tCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGAcc                        >  2:166983/1‑67 (MQ=21)      tCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTAGGACTGAAGCGGCTGAcc                        >  1:199383/1‑67 (MQ=21)            ctctATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTg                  >  1:764455/1‑68 (MQ=17)            ctctATTATTCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTg                  >  1:84626/1‑68 (MQ=17)                   attCTCTCCGCTGAGATGATGCTGCGCCATTTGGGTTGGACTGAAGCGGCTGACCTGATTGTTTAAgg           <  2:312897/68‑1 (MQ=14)                   attCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAgg           <  1:270387/68‑1 (MQ=14)                   attCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAgg           <  1:802483/68‑1 (MQ=14)                   attCTCTCCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAgg           >  2:95510/1‑68 (MQ=14)                     tctctcCGCTGAGATGATGCTGCGCCATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTa         >  1:177012/1‑68 (MQ=11)                     tctctcCGCTGAGATGATGCTGCGCAATATGGGTTGGACTGAAGCGGCTGACCTGATTGTTAAAGGTa         >  2:139642/1‑68 (MQ=11)                            gCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAgg  <  1:165184/68‑1 (MQ=255)                                                            |                                    GTAAATCCTGGCTCTATTATTCTCTCCGCTGAGATGATGCTGCGCCACATGGGTTGGACCGAAGCGGCTGACTTAATTGTTAAAGGTATGGAAGG  >  NC_000913/1196173‑1196267

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑