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	43 [0]	[0] 43	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)	43 (0.900)	35/274	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

TTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_hsa_tpiA/1299351‑1299498 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctaaATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACG  >  NC_000913_3_hsa_tpiA/1300698‑1300838                                                                                                                                                                                                                                                                                                    TTCTCAAATTACAGTTAGTTATAAGGATCTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAA                                                                                                                                               <  2:676835/149‑1   CTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATA                                                                                                                                             >  2:200421/1‑149      AAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAATAATAATTGAAATGATATTATTAATTCACCTGCCTTTGGTAGAGGAAAGTGCTAAATAATA                                                                                                                                          >  2:102860/1‑149               TTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGT                                                                                                                                 >  2:369902/1‑149                     ATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCGATTGTGTAATT                                                                                                                           >  1:833348/1‑149                      TAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGACACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑A                                                                                                                         >  2:581081/1‑149                        AGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATT                                                                                                                       <  1:174491/149‑1                              TCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCAT                                                                                                                 <  2:610668/149‑1                                 TTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCGTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGATAGAGGACAGTGCTAAATAATAATCAATTGTTCAATT‑ATTGTGaacttt                                                                                                              >  2:745295/1‑143                                 TTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTC                                                                                                              >  1:56900/1‑149                                   AACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCAC                                                                                                            >  1:365350/1‑149                                           CTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGATAGAGGAAAGTACTAAATACTAATCAATTGTTAATGT‑ATTCGACATTTCACTACTGGAc                                                                                                    >  2:73327/1‑148                                                 ACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAA                                                                                              >  1:854732/1‑149                                                      catttaATTTTCGCCACACCATAATCCTGAGCTTGCTGAAAAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGA                                                                                         <  1:592905/143‑1                                                               TTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGA                                                                                <  1:40734/149‑1                                                                  GCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACAT                                                                             <  1:296248/149‑1                                                                     ACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTAACTACTGGAACTGTAATAAGAAAAGATAGcactgct                                                                          >  2:254048/1‑142                                                                     ACATCATAATCCTGAGCTTGCTGCAGAATAAGTGAAATTATATTCTGAATTCCACTGCCTTTGGGAGAGGAAAATGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCATTACTGGAATTGTAATCAGAAGAGATAAACATGCT                                                                          >  2:409515/1‑149                                                                      CATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTT                                                                         <  1:546605/149‑1                                                                      CATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTT                                                                         <  1:546751/149‑1                                                                      CATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTT                                                                         <  2:283719/149‑1                                                                                 TGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCT                                                              <  2:688602/149‑1                                                                                     CTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAGTAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGGCATGCTTAGCCTATCTCTATTT                                                          >  1:12444/1‑149                                                                                      TTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTG                                                         >  2:443937/1‑149                                                                                           GAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGA                                                    >  2:547233/1‑149                                                                                            AAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAA                                                   >  1:348656/1‑149                                                                                                  AATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAA                                             <  2:83476/149‑1                                                                                                  AATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAA                                             <  1:533615/149‑1                                                                                                         agtATATTATTAATTCCAATGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAACTT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTT                                      <  1:26607/146‑1                                                                                                         ATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTT                                      <  1:369902/149‑1                                                                                                              ATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAA                                 <  2:348656/149‑1                                                                                                                              CCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAAT                                                                  <  2:261321/100‑1                                                                                                                              CCTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAAT                                                                  >  1:261321/1‑100                                                                                                                               CTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATT                                                      >  2:27934/1‑111                                                                                                                               CTTTGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATT                                                      <  1:27934/111‑1                                                                                                                                  TGGTAGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAG             <  2:854732/149‑1                                                                                                                                    GTAGAGGAAAGTGCTAAATAATAATCAATAAATACATTCAGTG‑GCATGTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATAGATGCAAGATATAGAT           <  2:833348/149‑1                                                                                                                                      AGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGG                               >  2:691565/1‑127                                                                                                                                      AGAGGAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGG                               <  1:691565/127‑1                                                                                                                                          GAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGACAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGAT     >  1:263834/1‑149                                                                                                                                          GAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGA                                                                                >  1:807933/1‑74                                                                                                                                          GAAAGTGCTAAATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGA                                                                                <  2:807933/74‑1                                                                                                                                             AGTGCTAAATAATAATCAATTGTTCAACT‑ATTGTGCATTTCCCTAATATCACCGGAATCAGAAAAGATAGACATGCGTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACG  <  1:417690/149‑1                                                                                                                                                                                                                                                                                                    TTCTCAAATTACAGTTAGTTATAAGGATTTCCTTAACTGCTTCTCCTCACCATCATGTTATTTTCGCCACATCATAATCCTGGGCTTGCTGAAGAATAATTGAAATGATATTATTAATTCCACTGCCTTTGGTAGAGGAAAGTGCTAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913_3_hsa_tpiA/1299351‑1299498 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ctaaATAATAATCAATTGTTAAATT‑ATTGTGCATTTCACTACTGGAACTGTAATCAGAAAAGATAGACATGCTTAGCCAATCTCTATTTGATTGAATTGAAAGATGTTTGTTAAGGCATGGATGCAAGCTATAGATTCTGATACG  >  NC_000913_3_hsa_tpiA/1300698‑1300838

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: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.