Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC	NC_000913_3_hsa_tpiA	1,726,433	Δ11 bp	33.3%	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	16 (0.460)	8 (0.230)	8/276	NT	33.3%	coding (410/600 nt)	nemR	transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated
	?	NC_000913_3_hsa_tpiA	1726444 =	16 (0.460)					coding (422/600 nt)	nemR	transcriptional repressor for the nemRA‑gloA operon, quinone‑, glyoxal‑, and HOCl‑activated

TTTGCCAACATGGAACCATCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTA  >  NC_000913_3_hsa_tpiA/1726312‑1726592                                                                                                                                     |                                                                                                                                                     actgaaccagttttgccaacatggaaccatcagtggttgcctgacagtaaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTgag                                                                                                                                      >  1:553109‑M2/133‑149 (MQ=255)        cagttttgccaacattgaacccttagtggttgcctgacagtaaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCAtt                                                                                                                               <  2:85759‑M2/24‑1 (MQ=255)          aTGGAACCATCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTAAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGACCCATGGt                                                                                                                             >  2:42843/1‑149 (MQ=255)                  aTCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGACCCATTCTTTAACCtt                                                                                                                     >  2:337791/1‑149 (MQ=255)                       tGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTAAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTtgtg                                                                                                                >  1:191840/1‑149 (MQ=255)                                   aGTAAAATTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGGAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCGCCCAGGCGCTGGAAAAGGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGc                                                                                                    <  1:490658/149‑1 (MQ=255)                                    gTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAAAAGATATGCGGAGGGCGAGCGATAAAGGTGCTCGCGGCGTGATCGGCCTGCTCTCTCAGGCGGTGGAAAATGGCCTTGCGAACCCTTGTATAACCTTTTGCGGCCAACCATTGCa                                                                                                   >  2:323031/1‑149 (MQ=255)                                        aaCTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCCGGCGACGGGAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAg                                                                                               <  1:517810/149‑1 (MQ=255)                                             tctGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGcaca                                                                                          >  1:219105/1‑149 (MQ=255)                                             tctGCCGAAGTGTGCGAACTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGcaca                                                                                          >  1:162055/1‑149 (MQ=255)                                              agtaaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACaa                                                                                         >  1:636481‑M2/88‑149 (MQ=255)                                                taaaactctctgccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAACATGGCCGTGAGAACCATTGTTTAACCTTTTTTGGCGAACCTCTGCAACAGGCACAGGt                                                                                       >  1:448227‑M2/86‑149 (MQ=255)                                                 ccGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGATGCTCGCGGCGTGAGCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACAGCTGCAGCAGGCACAAggg                                                                                      >  1:580481/1‑147 (MQ=255)                                                           gccgaagtgtgcgatctgtcagaagatatgcgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCAc                                                                            <  1:610621‑M2/75‑1 (MQ=255)                                                                  tcattagaTATTCGCAGCGCGATGGATAAAGGTGCGCGCAGCGTGGTCGCCCTGCTCTCGCAGGCGCTGGAAAATGGCCGTGGGAACCATTGTTTAACCTTCAGTAGCCAACCGCGGCAACAGGCACAAGTGCTTTACGCCCTGTGGCt                                                                     >  2:300454/6‑149 (MQ=255)                                                                     gaagaTATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTggg                                                                  >  1:46147/1‑149 (MQ=255)                                                                                        tGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCCCGAATCTGCAGGCCaaa                                               >  1:213188/1‑149 (MQ=255)                                                                                         cgcagcgcgatggataaaggtgctcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCaaaa                                              <  1:84395‑M2/105‑1 (MQ=255)                                                                                              aaGGTGCTCGCGGCGTGGTCGCCCTGCTCTCTCAGCTGCTGCAAAACGGCCGAGAGCAGGATTGTTTAACCTTTTGTGGCGAACCGCAGCAACCGGCGCAAGTCCTTTAATCACTTAGGATTGGCGCGAATCTGCAGGCCAACATTTcg                                         >  2:436574/1‑149 (MQ=255)                                                                                              aaGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTcg                                         >  1:255992/1‑149 (MQ=255)                                                                                                         ggcggcaTCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGa                              <  1:2749/143‑1 (MQ=255)                                                                                                         aaggtgttcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGa                              <  1:143320‑M2/121‑1 (MQ=255)                                                                                                                tcgcggcgtgatcgccctgctTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTg                       >  1:498757‑M2/22‑149 (MQ=255)                                                                                                                        ctctctCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCAAATCTGCAGGCCAAAATTTTGCGCAGTTTCGAGCCACTGGAAAAcac               >  2:62798/1‑147 (MQ=255)                                                                                                                                ggCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGccc       <  1:270159/149‑1 (MQ=255)                                                                                                                                     tGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCAGAAGTGCTTTACGCTCTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTa  >  2:437094/1‑149 (MQ=255)                                                                                                                                     |                                                                                                                                                     TTTGCCAACATGGAACCATCAGTGGTTGCCTGACAGTAAAACTCTCTGCCGAAGTGTGCGATCTGTCAGAAGATATGCGCAGCGCGATGGATAAAGGTGCTCGCGGCGTGATCGCCCTGCTCTCTCAGGCGCTGGAAAATGGCCGTGAGAACCATTGTTTAACCTTTTGTGGCGAACCGCTGCAACAGGCACAAGTGCTTTACGCACTGTGGCTTGGCGCGAATCTGCAGGCCAAAATTTCGCGCAGTTTCGAGCCACTGGAAAACGCGCTGGCCCATGTA  >  NC_000913_3_hsa_tpiA/1726312‑1726592

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.