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	50 [0]	[0] 50	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)	48 (0.820)	42/274	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

GGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGTCAATA  >  NC_000913_3_hsa_tpiA/1300553‑1300845                                                                                                                                                  |                                                                                                                                                    tcaaattacagttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagactaattgaaatgatattattaattccactgcctttgctagagtaaagtgctaaataa                                                                                                                                                  >  2:978771‑M2/146‑149 (MQ=255)     attacagttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaataataat                                                                                                                                              <  2:673501‑M2/8‑1 (MQ=255)          agttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAAtt                                                                                                                                         <  2:18061‑M2/13‑1 (MQ=255)          agttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAAtt                                                                                                                                         >  2:824939‑M2/137‑149 (MQ=255)            ttagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcctaatcctgggcttgctgaggcataattgaaatgctcttatttattcatctgccgtgggtagaggaaagtgctacATAATAATAAATTGt                                                                                                                                       >  1:721730‑M2/135‑149 (MQ=255)             tagttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGtt                                                                                                                                      <  1:33568‑M2/16‑1 (MQ=255)                ttataaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTaaa                                                                                                                                   >  1:736467‑M2/131‑149 (MQ=255)                    aaggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAattat                                                                                                                               >  1:839949‑M2/127‑149 (MQ=255)                      ggatttccttaactgcttctcctcaccatcatgttattttcgccacatcataatactgggcttgctgaagaataattgaaatgatattattaattcaactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATtg                                                                                                                             >  2:1045791‑M2/125‑149 (MQ=255)                        atttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATtgtg                                                                                                                           >  1:1038708‑M2/123‑149 (MQ=255)                         tttccttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGc                                                                                                                          <  1:537062‑M2/28‑1 (MQ=255)                             cttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATGGTTAAATTATTGTGCAttt                                                                                                                      >  2:661082‑M2/118‑149 (MQ=255)                              ttaactgcttctcctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCatttt                                                                                                                     >  2:714777‑M2/117‑148 (MQ=255)                                  ctgcttctcctcaccatcatgttattttcgccacatcataatcatgggcttgttaaagaataattcatatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCacta                                                                                                                 <  1:466023‑M2/37‑1 (MQ=255)                                  ctgcttcgcctcaccatcatgatattttcgccacatcataatcctggtcttgctgaagaataattgaaatgatagtattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCacta                                                                                                                 <  2:246347‑M2/37‑1 (MQ=255)                                           ctcaccatcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcttttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTAAATACTGGAACTg                                                                                                        >  2:321134‑M2/104‑149 (MQ=255)                                           ctcaccatcatgttactttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgccttgtgtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTg                                                                                                        <  1:452188‑M2/46‑1 (MQ=255)                                                catcatgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATc                                                                                                   >  2:790211‑M2/99‑149 (MQ=255)                                                    atgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaa                                                                                               >  2:179245‑M2/95‑149 (MQ=255)                                                     tgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaaa                                                                                              <  2:70993‑M2/56‑1 (MQ=255)                                                     tgttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtcctaaATAATAATCAATTTTTAAATTACTTTGCATTTCACTACTAGACCTCTAACCAGcaa                                                                                              >  2:471575‑M2/94‑149 (MQ=255)                                                      gttattttcgccacatcataattctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaaaa                                                                                             <  2:627877‑M2/57‑1 (MQ=255)                                                      gttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatcttattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaaaa                                                                                             >  1:686299‑M2/93‑149 (MQ=255)                                                      gttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGaaaa                                                                                             <  2:839949‑M2/57‑1 (MQ=255)                                                      gttattttcgccacataataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTTGAACTGTAATCAGaaaa                                                                                             <  2:962619‑M2/57‑1 (MQ=255)                                                       ttattttcgccacatcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAg                                                                                            >  1:788710‑M2/92‑149 (MQ=255)                                                                ccacatcataatcctgggcttgctgaagaatacttgaaatgatataattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATg                                                                                   >  1:829960‑M2/83‑149 (MQ=255)                                                                 aacatcataatccagggctgtctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACAtga                                                                                  >  2:97876‑M2/82‑148 (MQ=255)                                                                    atcataatcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagaggaaagttctaaATAATCATCAATTGTTAAATTATTGTGCATTTCACTACTTGTAATGTAATGCGTAAGGATGCACATgctca                                                                               >  2:956680‑M2/79‑147 (MQ=255)                                                                     gcataatcctgggcgtgctgaagaataattgaaatgagattattaattccactgcttttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAg                                                                              <  2:212996‑M2/72‑1 (MQ=255)                                                                           tcctgggcttgctgaagaataattgaaatgatattattaattccactgcctttggtagcggaaattgctaaATAATAATCAATTGTTCAATTATTGTGCACTTCACTACTGGAACTGTAATAAGGAAAGATAGAAATGCTTAGCCAAtc                                                                        >  1:697776‑M2/72‑149 (MQ=255)                                                                               gggcttgctgaagaataattgcaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATAAGAAAACATAGACATGCTTAGCCAATCTCTa                                                                    >  2:50200‑M2/68‑149 (MQ=255)                                                                                          agaataattgaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCCCTATCGGTACTGTAATCAGAAAAGATAGACATGTTTAGCCAATCTCTATTTGattgaat                                                         <  1:824939‑M2/93‑1 (MQ=255)                                                                                               aattgaaatgatattattaattccactgcctatggtgtaggataatgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGaaa                                                    <  1:978771‑M2/98‑1 (MQ=255)                                                                                                   gaaatgatattattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGAtg                                                >  2:693481‑M2/48‑149 (MQ=255)                                                                                                           attattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCCCTCTTTGCTTGAATTGAAAGATGTTTGTTaa                                        >  1:50778‑M2/40‑149 (MQ=255)                                                                                                             tattaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAgg                                      <  2:546064‑M2/112‑1 (MQ=255)                                                                                                              attaattccactgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGc                                     >  1:697260‑M2/37‑149 (MQ=255)                                                                                                                       actgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGCTAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCa                            >  2:405658‑M2/28‑149 (MQ=255)                                                                                                                       actgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCa                            >  1:399699‑M2/28‑149 (MQ=255)                                                                                                                        ctgcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCaa                           >  1:305347‑M2/27‑149 (MQ=255)                                                                                                                          gcctttggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGc                         <  2:305347‑M2/125‑1 (MQ=255)                                                                                                                               tggtagaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAg                    <  1:179245‑M2/130‑1 (MQ=255)                                                                                                                                   agaggaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTc                <  1:180711‑M2/134‑1 (MQ=255)                                                                                                                                   agaggaaagtgctaaAATATAATCAATTGTTAAATTATTGTGCACTTTACTACTGGAACTGTAATCAAAAAAGATAGACATGCTTAGCTAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGCCATTGATGCCAGCTATAGATTc                <  2:721730‑M2/134‑1 (MQ=255)                                                                                                                                       gaaagtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACCGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGAt            >  1:160116‑M2/12‑149 (MQ=255)                                                                                                                                          agtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAAATGTTTGTTAAGGCATGGATGCAAGCAATAAATTCTGATACg         >  2:272870‑M2/9‑149 (MQ=255)                                                                                                                                           gtgctaaATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGACCTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTTAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACgg        <  1:926822‑M2/142‑1 (MQ=255)                                                                                                                                              ctaaATAATAATCAATTGTTAAATTATTTTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGTCa     >  2:783334‑M2/5‑149 (MQ=255)                                                                                                                                                 aATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGTCAATa  >  2:371045‑M2/2‑149 (MQ=255)                                                                                                                                                  |                                                                                                                                                    GGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAAATAATAATCAATTGTTAAATTATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACGGTCAATA  >  NC_000913_3_hsa_tpiA/1300553‑1300845

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑