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	46 [0]	[0] 46	[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)	41 (0.920)	33/270	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

TTGTGTTAAAAATTTGCTAAATTTTGCCAATTTGGTAAAACAGTTGCATCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATT  >  NC_000913_3_vch_tpiA/257763‑258055                                                                                                                                                 |                                                                                                                                                     ttGTGTTAAAAATTTGCTAAATTTTGCCAATTTGGTAAAACAGTTGCATCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAACAATTTACCGCGCTAGGCCCGTATATTCGTGAAGGTGagtg                                                                                                                                                  >  1:330208‑M1/1‑145 (MQ=255)                      ttttGCCAATTGGGTAAAACAGTTGCATCACAACAGGAGATAGCCATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAattgcaaagataatcgattcttttt                                                                                                                             <  2:96557‑M1/149‑26 (MQ=255)                       tatgcCATTTAGGTACATCATTTGAATCACTGAATGAGATAGCAATGACTTTACCGTGTGGACACCCGAAGAGTAGATTGATCAAAAGATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttc                                                                                                                            <  2:655324‑M1/147‑27 (MQ=255)                         tGCCAATTTGGTAAAACAGTTGCATCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcga                                                                                                                          <  1:620442‑M1/149‑29 (MQ=255)                                      aaaCAGTTGCATCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgta                                                                                                             >  1:513770‑M1/1‑108 (MQ=255)                                      aaaCAGTTGCATCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGCCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctctttcgattgtctggctgta                                                                                                             >  2:298338‑M1/1‑108 (MQ=255)                                       aaCAGTTGCATCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtat                                                                                                            <  1:131609‑M1/149‑43 (MQ=255)                                           gTTGCATCACAACAGGAGATAGCAATGACGTTACCGAGTGGACGCCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATTTTCGTGGAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgt                                                                                                        <  2:320157‑M1/149‑47 (MQ=255)                                                aTCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAAGTAaatgcaaagataatcgattctttttcgcttgccgtggtgggtgcgtcaacg                                                                                                   >  2:547974‑M1/1‑98 (MQ=255)                                                 tCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGACGAGCAGATGGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcctcaacgt                                                                                                  >  2:398175‑M1/1‑97 (MQ=255)                                                  cacaACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtg                                                                                                 <  1:466161‑M1/149‑54 (MQ=255)                                                     aacaGGAGATAGCAATGACGTTACCGAGTGGACACCCGCAGAGCAGATGGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaa                                                                                              >  1:119923‑M1/1‑93 (MQ=255)                                                     aacaGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGACCGTAAATTCGTGAAGGTAagtgcaaagataatcgattatttgtcgattgtctggctgtatgcgtccacgtggaa                                                                                              >  2:462966‑M1/1‑93 (MQ=255)                                                         gggagtagcaaTGAAGTAACCGAGTCAACAACGGAAGACCAGATTGACCAAAAAATTTACCGCCCTAGGCCCGTATATTCGTGAAGGTAagtgcaaagatcatcgattctttttcgattgtctggctgtatgcgtcaacgggaaaccgg                                                                                          <  2:214125‑M1/144‑61 (MQ=255)                                                                  aaTGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaccgtgaaaccggcaccggcag                                                                                 >  1:78661‑M1/1‑80 (MQ=255)                                                                         ttACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgc                                                                              <  2:57532‑M1/145‑73 (MQ=255)                                                                         ttACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgc                                                                              >  1:57532‑M1/1‑73 (MQ=255)                                                                               aGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGTCCTAGGAAGGTTGAATTGAGAATATAagcgcaaatataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctg                                                                    <  1:782851‑M1/149‑83 (MQ=255)                                                                               aGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctg                                                                    <  1:290579‑M1/149‑83 (MQ=255)                                                                               aGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctg                                                                    <  1:564975‑M1/149‑83 (MQ=255)                                                                               aGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACCAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctg                                                                    <  1:564603‑M1/149‑83 (MQ=255)                                                                                gTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattcttttttgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctgg                                                                   <  2:616130‑M1/149‑84 (MQ=255)                                                                                gTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctgg                                                                   <  2:686788‑M1/149‑84 (MQ=255)                                                                                 tGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggg                                                                  >  1:258598‑M1/1‑65 (MQ=255)                                                                                        ccGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtggaaccggcaccgaaagggcgtgaattctggggctggtg                                                           >  2:144843‑M1/1‑58 (MQ=255)                                                                                                cAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagc                                                   >  2:374235‑M1/1‑50 (MQ=255)                                                                                                   aTTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctgg                                                <  2:513770‑M1/149‑103 (MQ=255)                                                                                                        tCAAAAAATTTACCGCACTAGGCCCATATATTCGTGAAGGTAagtgcaaagataatcgactctttttcgattgtctggctgtatgcgtcaacgtgaaacgggcaccgggagtgcgtgaattctggggctgggggatggagctggaagcg                                           >  1:73005‑M1/1‑42 (MQ=255)                                                                                                          aaaaaaTTTACCGCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgca                                         >  2:256291‑M1/1‑40 (MQ=255)                                                                                                          aaaaaaTTTACCGCACTAGGCCCGGATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgca                                         <  1:784516‑M1/149‑110 (MQ=255)                                                                                                                      gCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttt                             <  1:558459‑M1/149‑122 (MQ=255)                                                                                                                      gCACTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttt                             <  1:256291‑M1/149‑122 (MQ=255)                                                                                                                         cTAGGCCCGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagttcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttac                          <  1:179269‑M1/149‑125 (MQ=255)                                                                                                                              cccGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtc                                                                                                                     <  1:312595‑M1/53‑34 (MQ=255)                                                                                                                              cccGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtc                                                                                                                     >  2:312595‑M1/1‑20 (MQ=255)                                                                                                                              cccGTAGATTCGTGAAGGTAagtgcaaagatgatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcacccgaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctaca                     <  1:80223‑M1/149‑130 (MQ=255)                                                                                                                               ccGTATATTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctacag                    >  1:479847‑M1/1‑19 (MQ=255)                                                                                                                                  tataTTCGTGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctacagtta                 >  1:478801‑M1/1‑16 (MQ=255)                                                                                                                                   atatTCGTGAAGGTAagtgcaaagatgatcgattctgtttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctacagttac                <  1:398175‑M1/149‑135 (MQ=255)                                                                                                                                   agattcGTGAAGGGAattggaaagataatcgattcgttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctacagttac                <  2:330208‑M1/147‑135 (MQ=255)                                                                                                                                     atTCGGGAAGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctacagttacca              <  2:398813‑M1/149‑137 (MQ=255)                                                                                                                                            aaGGTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctacagttaccagtttggt       <  2:479847‑M1/149‑144 (MQ=255)                                                                                                                                              ggTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgc                                          <  2:203908‑M1/112‑109 (MQ=255)                                                                                                                                              ggTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgc                                          >  1:203908‑M1/1‑4 (MQ=255)                                                                                                                                               gTAagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctacagttaccagtttggtctg    >  1:98200‑M1/1‑3 (MQ=255)                                                                                                                                                 aagtgcaaagataatcgattctttttcgattgtctggctgtatgcgtcaacgtgaaaccggcaccggaagtgcgtgaattctggggctggtggatggagctggaagcgcaggaatcccgttttacctacagttaccagtttggtctgtt  <  1:412009‑M1/149‑149 (MQ=255)                                                                                                                                                 |                                                                                                                                                     TTGTGTTAAAAATTTGCTAAATTTTGCCAATTTGGTAAAACAGTTGCATCACAACAGGAGATAGCAATGACGTTACCGAGTGGACACCCGAAGAGCAGATTGATCAAAAAATTTACCGCACTAGGCCCGTATATTCGTGAAGGTAGGTAATGACTCCAACTTATTGATAGTGTTTTATGTTCAGATAATGCCCGATGACTTTGTCATGCAGCTCCACCGATTTTGAGAACGACAGCGACTTCCGTCCCAGCCGTGCCAGGTGCTGCCTCAGATTCAGGTTATGCCGCTCAATT  >  NC_000913_3_vch_tpiA/257763‑258055

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: ‑