Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913_3_hsa_tpiA	1,299,499	Δ1,199 bp	intergenic (+254/‑485)	ychE → / → oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913_3_hsa_tpiA	1299499–1300697	1300697	1–1199	53 [0]	[0] 54	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	= 1299498	0 (0.000)	52 (0.780)	47/270	0.5	100%	intergenic (+253/‑1684)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein
	?	NC_000913_3_hsa_tpiA	1300698 =	0 (0.000)					intergenic (+1453/‑484)	ychE/oppA	UPF0056 family inner membrane protein/oligopeptide ABC transporter periplasmic binding protein

GGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGTCAATAA  >  NC_000913_3_hsa_tpiA/1300553‑1300846                                                                                                                                                  |                                                                                                                                                      tcaaattacagttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacttcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaataa                                                                                                                                                    >  1:477901‑M2/146‑149 (MQ=255)   aacttacagttatttataaggatttccttaactgcttctcctctccatgatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaataata                                                                                                                                                  <  2:723598‑M2/6‑1 (MQ=255)   aaattacagttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaataata                                                                                                                                                  <  1:1096084‑M2/6‑1 (MQ=255)     attacagttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaataata‑at                                                                                                                                               >  1:668948‑M2/142‑149 (MQ=255)             tagttataaggattgccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattcccctgcctgtggtagaggaaagtgctaaATAATA‑ATCAATTGtt                                                                                                                                       <  1:1194029‑M2/16‑1 (MQ=255)              agttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTa                                                                                                                                      <  1:403108‑M2/17‑1 (MQ=255)                ttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTaaa                                                                                                                                    >  2:124743‑M2/131‑149 (MQ=255)                ttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTaaa                                                                                                                                    >  1:141222‑M2/131‑149 (MQ=255)                          ttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTTTGCa                                                                                                                          >  2:47871‑M2/121‑149 (MQ=255)                          ttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCa                                                                                                                          <  2:1183118‑M2/29‑1 (MQ=255)                            ccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCAtt                                                                                                                        >  2:1106196‑M2/119‑149 (MQ=255)                                 actgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCact                                                                                                                   >  1:710667‑M2/114‑149 (MQ=255)                                   tgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctcaATAACA‑ATCAATTGTTAAATTATTGTGCATTTCactac                                                                                                                 <  1:947787‑M2/38‑1 (MQ=255)                                               ccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAAt                                                                                                     <  2:996557‑M2/50‑1 (MQ=255)                                                catcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATc                                                                                                    <  2:889897‑M2/51‑1 (MQ=255)                                                catcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATc                                                                                                    >  2:1086343‑M2/99‑149 (MQ=255)                                                catcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtaatccACACAC‑ATAACCCGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATc                                                                                                    >  2:736595‑M2/99‑149 (MQ=255)                                                 atcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCa                                                                                                   <  1:1013772‑M2/52‑1 (MQ=255)                                                  tcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAg                                                                                                  >  1:1136590‑M2/97‑149 (MQ=255)                                                    atgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaa                                                                                                <  1:124743‑M2/55‑1 (MQ=255)                                                      gttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaaaa                                                                                              <  2:1136590‑M2/57‑1 (MQ=255)                                                      gttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaaaa                                                                                              >  1:883135‑M2/93‑149 (MQ=255)                                                        tattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGa                                                                                            <  1:48923‑M2/59‑1 (MQ=255)                                                         attttcgccacatcataatcctgggcttgctgaagaataattgaaatgacatgattaagtccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGAt                                                                                           <  1:1183744‑M2/60‑1 (MQ=255)                                                           tttcggcacctcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGGATTCCACTACTGGAACTGTAATCAGAAAAGATAg                                                                                         <  2:266111‑M2/62‑1 (MQ=255)                                                             tcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaacgtgctaaATAATACCGCCAGCG‑GAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGAc                                                                                       >  1:231754‑M2/86‑149 (MQ=255)                                                               gccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTCATAAGAAAAGATAGACAt                                                                                     >  2:652314‑M2/84‑149 (MQ=255)                                                                 cacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGc                                                                                   <  2:710667‑M2/68‑1 (MQ=255)                                                                 cacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGc                                                                                   <  1:272635‑M2/68‑1 (MQ=255)                                                                   catcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCtt                                                                                 <  1:1106196‑M2/70‑1 (MQ=255)                                                                        taatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTTGAACTGTAATCAGAAAAGATAGTCATGCTTAGCCa                                                                            >  1:29054‑M2/75‑149 (MQ=255)                                                                               gggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaTTAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAATATAGACATGCTTAGCCACtcgctt                                                                     >  2:1159112‑M2/68‑148 (MQ=255)                                                                               gggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGCACTGTAATCAGAAAAGATAGACATGCTTAGCACATCGCTa                                                                     >  2:492800‑M2/68‑149 (MQ=255)                                                                                    tgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATttga                                                                <  2:141222‑M2/87‑1 (MQ=255)                                                                                     gctgaagaataatttaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATttgat                                                               <  2:883135‑M2/88‑1 (MQ=255)                                                                                       tgaagaataattgaaatgatattattatttccactgcgtttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTATGCAATTTCTATttgattg                                                             >  2:1171280‑M2/60‑149 (MQ=255)                                                                                         aagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTAtt                                                                   >  2:163471‑M2/58‑141 (MQ=255)                                                                                         aagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTAtt                                                                   <  1:163471‑M2/84‑1 (MQ=255)                                                                                         aagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGattgaa                                                           <  2:477901‑M2/92‑1 (MQ=255)                                                                                                attgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATATCACCCCTGTAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTCTTTCATTGATTTGTAAg                                                    >  1:284050‑M2/51‑149 (MQ=255)                                                                                                 ttgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGa                                                   >  1:149658‑M2/50‑149 (MQ=255)                                                                                                             tattaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAgg                                       >  1:679399‑M2/38‑149 (MQ=255)                                                                                                               ttaattccactgcctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATTTCTATTTGATTGAGTTGAAAGATGTTTGTTAAGGCa                                     >  1:791071‑M2/36‑149 (MQ=255)                                                                                                                        ctggctttggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCaa                            <  1:439056‑M2/123‑1 (MQ=255)                                                                                                                          gccttgggtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGc                          <  2:668948‑M2/125‑1 (MQ=255)                                                                                                                                 gtagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGAt                   >  2:819538‑M2/18‑149 (MQ=255)                                                                                                                                  tagaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGAtt                  >  1:75338‑M2/17‑149 (MQ=255)                                                                                                                                   agaggaaagggctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTc                 <  2:231754‑M2/134‑1 (MQ=255)                                                                                                                                    gaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCt                <  2:679399‑M2/135‑1 (MQ=255)                                                                                                                                    gaggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCt                >  1:954739‑M2/15‑149 (MQ=255)                                                                                                                                     aggaaagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTg               <  1:726509‑M2/136‑1 (MQ=255)                                                                                                                                         aagtgctaaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATAc           >  2:310176‑M2/10‑149 (MQ=255)                                                                                                                                               taaATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGTCaa     >  1:296967‑M2/4‑149 (MQ=255)                                                                                                                                                  ataata‑atCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGTCAATaa  <  1:692219/149‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                                      GGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATA‑ATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGTCAATAA  >  NC_000913_3_hsa_tpiA/1300553‑1300846

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: ‑