Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	1	1,000,236	C→T	intergenic (+49662/+5929)	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	1,000,236	0	C	T	100.0%	82.5 / NA	32	intergenic (+49662/+5929)	unknown/unknown	tRNA‑Leu‑CAG/tRNA‑Lys‑TTT
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (13/19);  total (13/19)

GTTGCTTCATGTTTTAGTAAGGGGAACTGTTTAATGTTGCAGAATACAAGTGATGGACATCAAAACAACAAATAAGTGATCATTAAAAACGAACAAATATAGTGAGTGTAGTTCCAGCCTTTTGAAAAGGCCTTTTGACCTTTTTAGGTAAGACCTTTCCCTTGGGAAGGTTATCCTTAAATTTTACCCTTAGCCCGATAGGGCTCCCTTGGGCCTTTTACCTTTTGGCAATTTTGTTGTATGATTCCAAGATAGATCATTATTACAATCCGCGCGCGTTGGAGAAAATATGTTAAATCAAGCTAAATCAAAAAATGGGCAAACTCATCT‑TCAAGAAAGAGTTTTATCAATGTTTGAGCAATCCTTAACAGAAGAGCAGCGCTTTTTACAAGGTGTCTTAAATGGAAAAATTAAGACTTACTCACATGAAGATGT  >  1/999990‑1000424                                                                                                                                                                                                                                                       |                                                                                                                                                                                              gTTGCTTCATATCTTAGTAAGGGGTGTTATTTAATGTTGCAGAATACAAGTGATGAATATCAAAACAACAAATAAGTGATCATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAag                                                                                                                                                                                           >  1:360243/1‑251 (MQ=255)     cTTCATATCTTAGTAAGGGGTGTTATTTAATGTTGCAGAATACAAGTGATGAATATCAAAACAACAAATAAGTGATCATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAaggtat                                                                                                                                                                                       >  1:190343/1‑247 (MQ=255)                          gttatttAATGTTGCAGAATACAAGTGATGAATATCAAAACAACAAATAAGTGATCATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAaggtatgt                                                                                                                                                                                     >  1:197498/5‑226 (MQ=255)                             atttAATGTTGCAGAATACAAGTGATGAATATCAAAACAACAAATAAGTGATCATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAaggtatgtagatccgtgttggag                                                                                                                                                                      <  1:690409/243‑22 (MQ=255)                             atttAATGTTGCAGAATACAAGTGATGAATATCAAAACAACAAATAAGTGATCATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAaggtatgtagatc                                                                                                                                                                                >  1:604511/2‑223 (MQ=255)                                          gAATACAAGTGATGAATATCAAAACAACAAATAAGTGATCATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAaggtatgtagatccgtgttggag                                                                                                                                                                      <  1:397000/231‑22 (MQ=255)                                                                             tGATCATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCaagaaag                                                                                                  <  1:651205/251‑1 (MQ=255)                                                                                 cATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAaggtatgtagatc                                                                                                                                                                                >  1:792599/1‑171 (MQ=255)                                                                                 cATTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGta                                                                                              >  1:353378/1‑250 (MQ=255)                                                                                  aTTAAAAACAGATAAATATGGTGCGGGTTGTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAaggtatgtagatc                                                                                                                                                                                <  1:660186/181‑12 (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                                                                    <  1:612114/247‑1 (MQ=255)                                                                                                            gttgTTCCTGCCTTTTGAAAAAGCCTTTTGGCCTTTTCAGGTAAGACCTTTCCCTTGGAAAGGTTATCCTTAAATTTTACCCTTAGCCCGCTAGGGCTCCCTTGTTCCTTTTACCTTTTTGCGGTTTTGTTGTATGATTTCAAGGTA‑‑‑‑‑‑T‑GTA‑GATC‑‑‑‑CGTGTTGGAGAAAATATGTTAAATCAAGCTAAATTAAAAAATGAGCAAACTCACTT‑TCAAGAAAGAGTATTATCAGTGTTTGAACAGTCCTTAAc                                                                    <  1:11348/247‑1 (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)                                                                                                                                                                                                                                                       |                                                                                                                                                                                              GTTGCTTCATGTTTTAGTAAGGGGAACTGTTTAATGTTGCAGAATACAAGTGATGGACATCAAAACAACAAATAAGTGATCATTAAAAACGAACAAATATAGTGAGTGTAGTTCCAGCCTTTTGAAAAGGCCTTTTGACCTTTTTAGGTAAGACCTTTCCCTTGGGAAGGTTATCCTTAAATTTTACCCTTAGCCCGATAGGGCTCCCTTGGGCCTTTTACCTTTTGGCAATTTTGTTGTATGATTCCAAGATAGATCATTATTACAATCCGCGCGCGTTGGAGAAAATATGTTAAATCAAGCTAAATCAAAAAATGGGCAAACTCATCT‑TCAAGAAAGAGTTTTATCAATGTTTGAGCAATCCTTAACAGAAGAGCAGCGCTTTTTACAAGGTGTCTTAAATGGAAAAATTAAGACTTACTCACATGAAGATGT  >  1/999990‑1000424

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: ‑