Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NZ_CP009273	322,687	A→G	I91T (ATC→ACC)	betA ←	choline dehydrogenase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NZ_CP009273	322,687	0	A	G	96.2%	79.4 / ‑3.4	26	I91T (ATC→ACC)	betA	choline dehydrogenase
Reads supporting (aligned to +/- strand):  ref base A (0/1);  new base G (14/11);  total (14/12)
Fisher's exact test for biased strand distribution p-value = 4.62e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.11e-01

GTAGCTCCAGTTCTCCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGATCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGTTCCGTTTCATAGGC  >  NZ_CP009273/322605‑322772                                                                                   |                                                                                      gTAGCTCCAGTTCTCCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGcga                                                                                <  2:435909/90‑1 (MQ=255)      tCCAGTTCTCCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATc                                                                           <  2:138796/90‑1 (MQ=255)         aGTTCTCCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCAc                                                                        >  2:425878/1‑90 (MQ=255)         aGTTCTCCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCAc                                                                        >  2:356991/1‑90 (MQ=255)           ttCTCCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCAccc                                                                      <  1:30344/90‑1 (MQ=255)           ttCTCCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGATCAGCGACGATCCAccc                                                                      <  2:61292/90‑1 (MQ=255)            tctcCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCa                                                                     >  1:15789/1‑90 (MQ=255)            tctcCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCa                                                                     >  1:118934/1‑90 (MQ=255)               ccAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGAc                                                                  >  2:239055/1‑90 (MQ=255)                    ccGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTa                                                             >  2:332446/1‑90 (MQ=255)                      gggTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTAcc                                                           >  2:152917/1‑90 (MQ=255)                      gggTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTAcc                                                           >  2:152026/1‑90 (MQ=255)                      gggTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTAcc                                                           <  1:152917/90‑1 (MQ=255)                        gTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACcgc                                                         <  2:289335/90‑1 (MQ=255)                            ttGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTcc                                                     <  2:463914/90‑1 (MQ=255)                               cgcCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCa                                                  <  2:277052/90‑1 (MQ=255)                                 cccAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACt                                                >  1:438434/1‑90 (MQ=255)                                                        ttGCCACGGATGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAAc                         <  2:246103/90‑1 (MQ=255)                                                                 aTGTAGCACATGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGt                <  2:174520/90‑1 (MQ=255)                                                                        acaTGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGTTCCGttt         >  2:412101/1‑90 (MQ=255)                                                                         caTGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGGTCAGGTTCCGTTTc        >  1:52909/1‑90 (MQ=255)                                                                           tGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGTTCCGTTTCAt      >  1:34925/1‑90 (MQ=255)                                                                           tGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGTTCCGTTTCAt      >  1:348468/1‑90 (MQ=255)                                                                           tGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGTTCCGTTTCAt      >  1:257424/1‑90 (MQ=255)                                                                           tGCCGTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGTTCCGTTTCAt      <  1:239055/90‑1 (MQ=255)                                                                               gTTGGTCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGTTCCGTTTCATAGGc  <  1:425878/90‑1 (MQ=255)                                                                                   |                                                                                      GTAGCTCCAGTTCTCCAGACCGGGTTCTTGCGCCCAGTTATCGAGATCCAGCGCATTGCCACGGATGTAGCACATGCCGTTGATCAGCGACGATCCACCCAGACCTTTACCGCGTCCGCACTCCATGCGGCGGTTATTCATAAACGGTTCAGGTTCCGTTTCATAGGC  >  NZ_CP009273/322605‑322772

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑