Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,000,262	(CG)3→1	intergenic (+49688/+5900)	unknown → / ← unknown	tRNA‑Leu‑CAG/tRNA‑Lys‑TTT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	1	1,000,260	0	C	.	100.0%	96.8 / NA	24	intergenic (+49686/+5905)	unknown/unknown	tRNA‑Leu‑CAG/tRNA‑Lys‑TTT
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (8/16);  total (8/16)
*	1	1,000,261	0	G	.	100.0%	96.8 / NA	24	intergenic (+49687/+5904)	unknown/unknown	tRNA‑Leu‑CAG/tRNA‑Lys‑TTT
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (8/16);  total (8/16)
*	1	1,000,262	0	C	.	100.0%	96.8 / NA	24	intergenic (+49688/+5903)	unknown/unknown	tRNA‑Leu‑CAG/tRNA‑Lys‑TTT
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (8/16);  total (8/16)
*	1	1,000,263	0	G	.	100.0%	96.8 / NA	24	intergenic (+49689/+5902)	unknown/unknown	tRNA‑Leu‑CAG/tRNA‑Lys‑TTT
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (8/16);  total (8/16)

TGATCATTAAAAACGAACAAATATAGTGAGTGTAGTTCCAGCCTTTTGAAAAGGCCTTTTGACCTTTTTAGGTAAGACCTTTCCCTTGGGAAGGTTATCCTTAAATTTTACCCTTAGCCCGATAGGGCTCCCTTGGGCCTTTTACCTTTTGGCAATTTTGTTGTATGATTCCAAGATAGATCATTATTACAATCCGCGCGCGTTGGAGAAAATATGTTAAATCAAGCTAAATCAAAAAATGGGCAAACTCATCT‑TCAAGAAAGAGTTTTATCAATGTTTGAGCAATCCTTAACAGAAGAGCAGCGCTTTTTACAAGGTGTCTTAAATGGAAAAATTAAGACTTACTCACATGAAGATGT  >  1/1000066‑1000424                                                                                                                                                                                                   ||||                                                                                                                                                                   tGATCATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCaagaaag                                                                                                  <  1:651205/251‑1 (MQ=255)     cATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGta                                                                                              >  1:353378/1‑250 (MQ=255)          aaaacagataaatatggtgcgggttgTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATc                                                                                         <  1:307693/226‑1 (MQ=255)                gataaatatggtgcgggttgTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCA‑CTCTCAAGAAAGAGTATTATCAGTGtt                                                                                   >  1:800660/20‑251 (MQ=255)                     atatggtgcgggttgTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGaac                                                                              <  1:143591/237‑3 (MQ=255)                     atatggtgcgggttgTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGaac                                                                              <  1:392502/237‑3 (MQ=255)                               ggttgTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCag                                                                                       >  1:239658/5‑231 (MQ=255)                                gttgTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAAc                                                                    <  1:11348/247‑1 (MQ=255)                                gttgTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAAc                                                                    <  1:612114/247‑1 (MQ=255)                                    ttCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAACtgaag                                                               <  1:150462/251‑1 (MQ=255)                                                                 ttttcAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGtattat                                                                                          >  1:609691/1‑195 (MQ=255)                                                                  tttcaGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATc                                                                                         <  1:99293/191‑1 (MQ=255)                                                                  tttcaGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAACTGAAGAGCAACGCTTTTTACAAGGTGTCttg                                     >  1:702711/5‑246 (MQ=255)                                                                  tttcaGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAACTGAAGAGCAACGCTTTTTACAAGGTGTCTTGAATg                                 >  1:137420/5‑251 (MQ=255)                                                                            gACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATc                                                                                         <  1:117744/185‑1 (MQ=255)                                                                                       tggaaaGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGaac                                                                              >  1:144612/5‑183 (MQ=255)                                                                                        ggaaaGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGaac                                                                              <  1:589814/181‑3 (MQ=255)                                                                                         gaaaGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAACTGAAGAGCAACGCTTTTTACAAGGTGTCTTGAATGGCAAAATTAAGACCTACTcaca           <  1:708263/248‑1 (MQ=255)                                                                                         gaaaGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAACTGAAGAGCAACGCTTTTTACAAGGTGTCTTGAATGGCAAAATTAAGACCTACTcaca           <  1:768890/248‑1 (MQ=255)                                                                                             ggTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATc                                                                                         <  1:73243/168‑1 (MQ=255)                                                                                             ggTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAACTGAAGAGCAACGCTTTTTACAAGGTGTCTTGAATGGCAAAATTACGAcaaagctacg           >  1:164276/1‑237 (MQ=255)                                                                                               ttATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAACTGAAGAGCAACGCTTTTTACAAGGTGTCTTGAATGGCAAAATTAAGACCTACTCACATGAAGag    <  1:692483/251‑2 (MQ=255)                                                                                                 aTCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAACTGAAGAGCAACGCTTTTTACAAGGTGTCTTGAATGGCAAAATTAAGACCTACTCACATGAAGaggt  <  1:109841/251‑4 (MQ=255)                                                                                                    cTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGaac                                                                              <  1:254176/172‑3 (MQ=255)                                                                                                                                                                                                   ||||                                                                                                                                                                   TGATCATTAAAAACGAACAAATATAGTGAGTGTAGTTCCAGCCTTTTGAAAAGGCCTTTTGACCTTTTTAGGTAAGACCTTTCCCTTGGGAAGGTTATCCTTAAATTTTACCCTTAGCCCGATAGGGCTCCCTTGGGCCTTTTACCTTTTGGCAATTTTGTTGTATGATTCCAAGATAGATCATTATTACAATCCGCGCGCGTTGGAGAAAATATGTTAAATCAAGCTAAATCAAAAAATGGGCAAACTCATCT‑TCAAGAAAGAGTTTTATCAATGTTTGAGCAATCCTTAACAGAAGAGCAGCGCTTTTTACAAGGTGTCTTAAATGGAAAAATTAAGACTTACTCACATGAAGATGT  >  1/1000066‑1000424

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑