Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_hsa_tpiA	1,197,502	C→T	G11R (GGA→AGA)	ymfD ←	e14 prophage; putative SAM‑dependent methyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_hsa_tpiA	1,197,502	0	C	T	100.0%	165.0 / NA	50	G11R (GGA→AGA)	ymfD	e14 prophage; putative SAM‑dependent methyltransferase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (22/28);  total (22/28)

ACTGATTAATTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGAG  >  NC_000913_3_hsa_tpiA/1197356‑1197647                                                                                                                                                   |                                                                                                                                                  aCTGATTAATTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGt                                                                                                                                                 <  2:817286/149‑1 (MQ=255)     aTTAATTCATCAGAATGTCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAACGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCat                                                                                                                                             >  1:955863/1‑149 (MQ=255)     aTTAATTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCat                                                                                                                                             >  2:1082604/1‑149 (MQ=255)           tcatcaGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATtata                                                                                                                                       <  2:1027361/149‑1 (MQ=255)            ggggaGAATATCTAAGTTTTCCGAAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAg                                                                                                                                      <  2:662143/145‑1 (MQ=255)              tcaGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCAATCTCTGAGCGAATATTAACTCTGTGCATATTATAGtt                                                                                                                                    >  1:1014994/1‑149 (MQ=255)               caGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTc                                                                                                                                   <  1:716160/149‑1 (MQ=255)                aGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCa                                                                                                                                  >  1:1091180/1‑149 (MQ=255)                aGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCa                                                                                                                                  >  1:554828/1‑149 (MQ=255)                  aaTATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCaaa                                                                                                                                <  2:981350/149‑1 (MQ=255)                      tCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCaa                                                                                                                            <  1:407779/149‑1 (MQ=255)                        tAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGt                                                                                                                          >  1:471710/1‑149 (MQ=255)                        tAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGAGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGt                                                                                                                          >  2:445179/1‑149 (MQ=255)                         aaGTTTTCCGCAGCCAAAACCAAGGGCGTGTCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCCTCGTATTATGTTTTGCTGCATTCTCTGAGCGAATATTTACTCTGTGCATATTATAGTTCAAAGCAAGTa                                                                                                                         <  1:1031156/149‑1 (MQ=255)                                      ccAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGt                                                                                                                                                 <  1:748752/112‑1 (MQ=255)                                      ccAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAAt                                                                                                            <  1:501813/149‑1 (MQ=255)                                       cAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATg                                                                                                           >  2:1088665/1‑149 (MQ=255)                                              aaGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTAtttt                                                                                                    <  2:494039/149‑1 (MQ=255)                                                gggCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTa                                                                                                  >  1:962656/1‑149 (MQ=255)                                                gggCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATCAGGTTTTGCTGCAGTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTCCCATTCAATTAATGTTATTTTTa                                                                                                  <  2:1014994/149‑1 (MQ=255)                                                       gCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGaaaa                                                                                           >  1:786194/1‑149 (MQ=255)                                                         cATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAAt                                                                                         >  1:632215/1‑149 (MQ=255)                                                                            aaTATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCg                                                                      <  2:653351/149‑1 (MQ=255)                                                                            aaTATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCg                                                                      >  1:153770/1‑149 (MQ=255)                                                                                 tcTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATGGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGAtt                                                                 <  1:486426/148‑1 (MQ=255)                                                                                         aGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgac                                                         <  1:1063329/149‑1 (MQ=255)                                                                                         aGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCGGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgac                                                         <  2:77305/149‑1 (MQ=255)                                                                                           atatCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgactt                                                       <  2:554828/149‑1 (MQ=255)                                                                                           agatCTAGAGGGCATCGTATGAGGTTTTTCTGCATTCTCTGAGCGAATATTAACTCTGTGTATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgactt                                                       <  2:269806/147‑1 (MQ=255)                                                                                                tAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgacttgactt                                                  >  2:165904/1‑149 (MQ=255)                                                                                                 agagGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACttt                                                 <  2:1091180/149‑1 (MQ=255)                                                                                                   agGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCa                                               <  2:786194/149‑1 (MQ=255)                                                                                                     ggCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGt                                             >  1:78136/1‑149 (MQ=255)                                                                                                      gCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGtt                                            >  1:95842/1‑149 (MQ=255)                                                                                                        aTCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTCTCAGTACt                                          >  1:748284/1‑149 (MQ=255)                                                                                                          cGTATGAGGCTTTGCTGCATTCTCTGAGCGAATATGAACTCTGTGCATATTATAGTTCAAATCAAGTACCATTCAATCAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGGCCGGGATTTTTCCGACTTGACTTTCAGTTCTgg                                        <  1:300220/149‑1 (MQ=255)                                                                                                            tATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGc                                      >  1:550996/1‑149 (MQ=255)                                                                                                              tGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCtt                                    >  1:291404/1‑149 (MQ=255)                                                                                                                agattttGCTGCATTCTCTGAGCGAATATTAACGGTGTGTGTATTATAGTTCAAAGCAAGTACCATTCGATTAATGTTATTTTTCGTGACAAATTCTTTTATTTTATCGTCGGGACTTTTTCCGGCTTGACTTCCAGTTTCGGGCttca                                  >  2:165757/4‑147 (MQ=255)                                                                                                                 ggTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAAc                                 <  2:550996/149‑1 (MQ=255)                                                                                                                  gTTTTGATGCATTTTTTGAGCGAATATTAACTCTGTGCATATTATAGTTAAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACt                                <  2:874526/149‑1 (MQ=255)                                                                                                                        gtgcATTCTTTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaa                          <  2:1076967/148‑1 (MQ=255)                                                                                                                            aTTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagcaa                      <  2:471710/149‑1 (MQ=255)                                                                                                                             ttCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagcaaa                     <  2:153770/149‑1 (MQ=255)                                                                                                                                  tGAGCGAATATTATCTCTGTGCATATTATAGTTAAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGGCCGGGATTTTTCCGACTTGACTGTCAGTTCTGGGCTTAACTGTCAAAGCAAAGataa                <  1:692837/149‑1 (MQ=255)                                                                                                                                  tGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTTTGGGCTTAACTGTCAAAGCAAAGttaa                >  2:692837/1‑149 (MQ=255)                                                                                                                                     gCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATAc             <  2:632215/149‑1 (MQ=255)                                                                                                                                      cGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCAtt                                                                                                                    >  2:353710/1‑45 (MQ=255)                                                                                                                                      cGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCAtt                                                                                                                    <  1:353710/45‑1 (MQ=255)                                                                                                                                               aCTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTga   >  1:765591/1‑149 (MQ=255)                                                                                                                                                ctctGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTgag  >  2:345639/1‑149 (MQ=255)                                                                                                                                                   |                                                                                                                                                  ACTGATTAATTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATAATACCACTCACTGAG  >  NC_000913_3_hsa_tpiA/1197356‑1197647

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑