Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
MC JC	NC_000913_3_vch_tpiA	257,908	Δ776 bp		[crl]	[crl]

Missing coverage evidence...
			seq id	start	end	size	←reads	reads→	gene	description
*	*	÷	NC_000913_3_vch_tpiA	257908	258683	776	27 [0]	[0] 27	[crl]	[crl]

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	= 257907	0 (0.000)	26 (0.970)	20/268	0.4	100%	noncoding (257907/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	258684 =	0 (0.000)					noncoding (258684/4641682 nt)	repeat_region	repeat region

GATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTGAAGGTAAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTG  >  NC_000913_3_vch_tpiA/258539‑258824                                                                                                                                                  |                                                                                                                                             ttgtgttaaaaatttgctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattggtcaaaaaatttaccgcactaggcccgaataatcgtgaaggtaAGTg                                                                                                                                           >  1:194980‑M2/146‑149 (MQ=255)           catttgctaaattttgccaagttggtaaaaaagttgcatgacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAAt                                                                                                                                 <  2:321386‑M2/14‑1 (MQ=255)            atttgctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATc                                                                                                                                <  2:200744‑M2/15‑1 (MQ=255)                  taaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacacgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaACTACAAGGATAATCAAGTCt                                                                                                                          >  1:371289‑M2/129‑149 (MQ=255)                           ccaatttggtaaaacagttgcatcacaacaggagagagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGAtt                                                                                                                 <  1:190824‑M2/30‑1 (MQ=255)                                    taaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTg                                                                                                        >  1:388282‑M2/111‑149 (MQ=255)                                      aaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTa                                                                                                      >  2:34424‑M2/109‑149 (MQ=255)                                              gcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCaa                                                                                              <  1:34424‑M2/49‑1 (MQ=255)                                                        aggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTc                                                                                                              <  2:94815‑M2/33‑1 (MQ=255)                                                        aggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTc                                                                                                              >  1:94815‑M2/91‑123 (MQ=255)                                                        aggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaattaacctcactagtcccgtatattcgtgaaggaaAAAACAAAGATAATCGATTCTTTTTCGATTGTCTGACTGTATGCGTCAACGTGAaacgg                                                                                    >  1:97057‑M2/91‑147 (MQ=255)                                                           agatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCa                                                                                 <  1:468109‑M2/62‑1 (MQ=255)                                                                 caaggacgttaccgagtggacacccgaagagcagattgagcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGaa                                                                           <  2:97057‑M2/68‑1 (MQ=255)                                                                   atgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGCTTGTCTGGCTGTATGCGCCACCGTGACacgggcacgcgaata                                                                         >  2:152671‑M2/80‑142 (MQ=255)                                                                   atgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGt                                                                         >  2:220480‑M2/80‑149 (MQ=255)                                                                   atgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcaataggcgcgtatattcgtgaaggtaAGTGCAAGGATAATCGATTCTTTTTCGATTGGCTGGCTATGTGCGTCAACATGAAACCGGCACCGGAAGt                                                                         >  2:153071‑M2/80‑149 (MQ=255)                                                                              gagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCt                                                              >  1:315555‑M2/69‑149 (MQ=255)                                                                                               gcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCGAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAg                                             >  1:144100‑M2/52‑149 (MQ=255)                                                                                                   attgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCggg                                         >  1:424312‑M2/48‑149 (MQ=255)                                                                                                                tttaccgcactaggcacgtatattcgtggaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATc                            <  2:243970‑M2/115‑1 (MQ=255)                                                                                                                             ggccgtatatttgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTTGATGGAGCTGGAAGCGCAGGAATCCCGTTTTAccttc               <  2:282983‑M2/128‑3 (MQ=255)                                                                                                                              cccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACa              <  2:315555‑M2/129‑1 (MQ=255)                                                                                                                              cccgtatagtcgtgaagctaTGTGGGAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACa              <  1:342145‑M2/129‑1 (MQ=255)                                                                                                                                   ttattcgtgaaggtaAGTGCAAAGATAAGCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTAc         <  2:144100‑M2/134‑1 (MQ=255)                                                                                                                                   atattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTAc         <  1:220480‑M2/134‑1 (MQ=255)                                                                                                                                         gtgaaggtaAGTGCAAAGATAATCGATTCTTTTTTTTTTTTTTTTCTGTATGCGACAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGCTGGAGCTGGAAGCGCAGGAATCCCGTTTTGCCTACAGTTACCAGttt   >  2:389788‑M2/10‑149 (MQ=255)                                                                                                                                          tcaaggtaAGTGCAAAGATAATCGATGTGTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTg  <  1:63213‑M2/141‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                             GATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTGAAGGTAAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTG  >  NC_000913_3_vch_tpiA/258539‑258824

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: ‑