Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_000913	753,346	T→G	63.8%	I375L (ATT→CTT)	gltA ←	citrate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	753,346	0	T	G	63.8%	14.8 / 24.3	32	I375L (ATT→CTT)	gltA	citrate synthase
Reads supporting (aligned to +/- strand):  ref base T (8/3);  new base G (5/15);  total (13/19)
Fisher's exact test for biased strand distribution p-value = 2.09e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.09e-01

TTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACTTCCAGCAGGTCATCCTTCGTGCCCAGCTCTTTC  >  NC_000913/753216‑753488                                                                                                                                   |                                                                                                                                               ttttCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCttt                                                                                                                                    >  1:582931/1‑143 (MQ=255)      atatCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGga                                                                                                                               >  1:170041/1‑143 (MQ=255)      atatCCTGGATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGga                                                                                                                               <  1:216031/143‑1 (MQ=255)                taCGGCTGACGCAGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAGGACGGAAGACCCATCGCTTTCAGGATGATACCaga                                                                                                                     <  2:683873/143‑1 (MQ=255)                   aGCTGACGCGGCCGGGCAAACTTCAGACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTa                                                                                                                  <  2:385582/143‑1 (MQ=255)                     cggACGCGGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCGCTTGGTACTTTCCACAGCAACCATCACTTTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGa                                                                                                                <  1:228439/141‑1 (MQ=255)                       gACGCGGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGaaa                                                                                                              <  1:694573/143‑1 (MQ=255)                         cgcgGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATc                                                                                                            <  1:775470/143‑1 (MQ=255)                              aCGCGCGATCTTCATGCCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGt                                                                                                       <  2:396421/143‑1 (MQ=255)                                gggCCATCGTCATACCGTCACTGTGCAGTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAATTTTACTGTTAACATTGAAGACGGAAGACCTATCGCTTTTAGGATGATACCAGAGTAGAAATCGACGTTc                                                                                                     <  1:214707/143‑1 (MQ=255)                                  gCAATCTTCATGCCGGCACTGTGCATTGCGCCCCGGTGGGCGATCCAGCCAACGGTACGGGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTGCAGGATGATACCAGAGTAGAAATCGACGTTCgg                                                                                                   <  1:58290/143‑1 (MQ=255)                                    taTCTTCATTCCGCGTCAGGGCATTTCGTTCCAGTGAGGGATCCAGCGAATGGTACGTGCCATTGCGAGAATGACGGTGAACATGGAAGGAGGAAGACCAATTGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGt                                                                                                 <  2:96409/142‑1 (MQ=255)                                        ttCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAg                                                                                             >  1:665924/1‑143 (MQ=255)                                         tCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGCGAACATGGAAGACGGAATACCCGTCGCTTCCAGGATGATACCAGAGTAGAAATCGACGATCGAGTACAGt                                                                                            >  2:205750/1‑143 (MQ=255)                                                           gttCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTAc                                                                          <  1:62474/142‑1 (MQ=255)                                                                    aGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTc                                                                 <  1:962896/143‑1 (MQ=255)                                                                           gATCAAGCCAACGGGACGTGCCATTGCTAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGa                                                          <  2:80534/143‑1 (MQ=255)                                                                                    aaCGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTcga                                                 >  1:923868/1‑141 (MQ=255)                                                                                            gTGCCGTTGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATa                                         <  2:129436/143‑1 (MQ=255)                                                                                             tGCCATTGCGTAAATGACGGTGAACATTGAAGACGGACGACCCTTCGGTTTCAGGATGATACCAGGGTAGAGATCGACGCTCGGGCACAGTTTATTCTCGAAAAAGTACGGGACGTTCAGCGCGATGTTTTCCAGCCCCATAg                                        >  2:341244/1‑143 (MQ=255)                                                                                             tGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGCTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCAtcg                                        >  1:322157/1‑141 (MQ=255)                                                                                                  ttGCGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACt                                   >  1:753479/1‑143 (MQ=255)                                                                                                    gggAAAATGACGCTGAACATGGAAGACGGAATACCCATCGCGTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACTTc                                 <  2:236809/141‑1 (MQ=255)                                                                                                     cGAAAATGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGAGGTTTTCCAGCCCCACAGCCACTTcg                                >  1:312813/1‑142 (MQ=255)                                                                                                           tGACGGTGAACATGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACTTCCAGCAgg                          <  1:912872/143‑1 (MQ=255)                                                                                                           tGACGGTGAACATGGAACACGACACACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGATGTTCGGGGACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACTTCCAGCAgg                          <  1:249866/143‑1 (MQ=255)                                                                                                                gTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACTTCAAGCCGGTCATc                     >  2:761099/1‑143 (MQ=255)                                                                                                                gTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTGTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTACATAGCCACTTCcagcacgcgatc                     >  2:663683/1‑136 (MQ=255)                                                                                                                gTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGATCGGGTACAGTTTCTTCTCGATAAAGTACGTGTAGTTCAGTGCGATGTTTTCTTGCTTTATTGCTTATTCCTGCAGGTTATc                     >  1:429614/1‑143 (MQ=255)                                                                                                                gTGAACATGGAAGACGGAAGACCCCTCGCTTTCGGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCAGAGCCACTTCCAGCAGGTCATc                     <  2:942488/143‑1 (MQ=255)                                                                                                                  gAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGCTGTTTTCCAGATCCATAGCCACTTCCAGCAGGTCATCCt                   >  1:564020/1‑143 (MQ=255)                                                                                                                    acctGGAAGACGGAAGACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACTTCCAGCAGGTCATCCTTc                 <  1:385951/140‑1 (MQ=255)                                                                                                                                   tACCCATCGCGTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACTTCCAGCAGGTCATCCTTCGTGCCCAGCTCTTTc  <  2:361099/143‑1 (MQ=255)                                                                                                                                   |                                                                                                                                               TTTTCATATCCTGTATACAGCTGACGCGGACGGGCAATCTTCATACCGTCACTGTGCATTTCGCTCCAGTGGGCGATCCAGCCAACGGTACGTGCCATTGCGAAAATGACGGTGAACATGGAAGACGGAATACCCATCGCTTTCAGGATGATACCAGAGTAGAAATCGACGTTCGGGTACAGTTTCTTCTCGATAAAGTACGGGTCGTTCAGCGCGATGTTTTCCAGCTCCATAGCCACTTCCAGCAGGTCATCCTTCGTGCCCAGCTCTTTC  >  NC_000913/753216‑753488

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑