Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC	NC_000913_3_hsa_tpiA	1,726,433	Δ11 bp	38.3%	coding (411‑421/600 nt)	nemR →	transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_hsa_tpiA	= 1726432	14 (0.430)	9 (0.280)	9/276	NT	38.3%	coding (410/600 nt)	nemR	transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated
	?	NC_000913_3_hsa_tpiA	1726444 =	15 (0.460)					coding (422/600 nt)	nemR	transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated

ACTGAACCAGTTTTGCCAACATGGAACCATCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGC  >  NC_000913_3_hsa_tpiA/1726301‑1726581                                                                                                                                                |                                                                                                                                          acTGAACCAGTTTTGCCAACATGGAACCATCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGaaa                                                                                                                                      >  1:588151/1‑149 (MQ=255)     aaCCAGTTTTGCCAACATGGAACCATCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAGAAGCTATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATgg                                                                                                                                  >  1:553578/1‑149 (MQ=255)          acactgaaccagttttgccaacatggaaccatcagtggttgcctgacagtaaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATTGCCGTg                                                                                                                             >  1:59653‑M2/135‑149 (MQ=255)                aaccagttttgccaacatggaaccatcagtggttgcctgacagtaaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAAcc                                                                                                                       >  1:381689‑M2/129‑149 (MQ=255)                      tGGAACCATCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGTAAAATGGCCGTGAGAACCATTGtt                                                                                                                 >  2:213584/1‑149 (MQ=255)                         aaCCACCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTAAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTaa                                                                                                              <  1:264662/149‑1 (MQ=255)                            caacatggaaccatcagtggttgcctgacagtaaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTAAATCt                                                                                                           >  1:139990‑M2/117‑149 (MQ=255)                                       catcagtggttgcctgacagtaaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatgaataaaggtgctagcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGaa                                                                                                >  1:548096‑M2/106‑149 (MQ=255)                                         cTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTAAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTATCGGTCTCTGTAAAATGCACGTGAAAACCATTGTTTAACTTTTGGTGGCCaatc                                                                                              >  1:21040/1‑147 (MQ=255)                                               gttgcctgacagtaaaactctctgacgaagtgtgcgatctgtcagaagatatgcgcagagcgatagatagaggggatcgcggcgtgatcgacctgctTGAAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCAAACCGatgaa                                                                                        >  2:498472‑M2/98‑147 (MQ=255)                                                   cctgacagtaaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAg                                                                                    >  1:23368‑M2/94‑149 (MQ=255)                                                                            gTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCCCAAGTGCTTTACGCACTGTGGc                                                           >  1:305660/1‑149 (MQ=255)                                                                                             gcgcGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCGGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTCGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAg                                          <  1:581453/149‑1 (MQ=255)                                                                                             gcgcGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAg                                          >  1:10769/1‑149 (MQ=255)                                                                                             gcgcGATGGATAAAGGTCCTCCCTTCCTGATCTCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAg                                          <  2:463050/149‑1 (MQ=255)                                                                                                cgATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGcc                                       >  1:349081/1‑149 (MQ=255)                                                                                                          gcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTcgc                             <  2:102572‑M2/111‑1 (MQ=255)                                                                                                               cTCGCGGCGTGATCGCCCTGCTCTCTCAGTCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCGTGGCGCGAATCTGCAGGCCAACATTTCGCGCAGt                        >  2:577497/1‑149 (MQ=255)                                                                                                                  taaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAAGTTCGCGCAGTTTc                     >  2:375846‑M2/31‑149 (MQ=255)                                                                                                                    ggcgTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGa                   <  2:165895/149‑1 (MQ=255)                                                                                                                    ggcgTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGa                   <  1:447266/149‑1 (MQ=255)                                                                                                                           tcgcggcgtgatcgccctgctTGTAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGGGGCTTGGCGCTAGTCTGCCGGCCAAAGTTTCGCGCCGTGTcgagccgcac            >  2:243375‑M2/22‑145 (MQ=255)                                                                                                                                 tGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACCGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGCATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAAc      >  1:466484/1‑149 (MQ=255)                                                                                                                                     cgcgcAGGCCGTGGAAAGTGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACgcgc  <  1:196625/145‑1 (MQ=255)                                                                                                                                                |                                                                                                                                          ACTGAACCAGTTTTGCCAACATGGAACCATCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGC  >  NC_000913_3_hsa_tpiA/1726301‑1726581

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.