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	55 [0]	[0] 55	[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)	53 (1.250)	45/274	0.0	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

TGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTGAAGGTAAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTGGTCTGTT  >  NC_000913_3_vch_tpiA/258538‑258831                                                                                                                                                   |                                                                                                                                                    cttgtgttaaaaatttgctaaattttgccaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGt                                                                                                                                                   <  1:639048‑M2/3‑1 (MQ=255)    gtgttaaaaatttgctaaattttgccaatttggtaaaacggttgcatcacaacaggagatagcaatgacgttaccgagtggacaccagaagagcagattgatcaaaaaatttaccgcactacgcccggatattcgtgaaggtaAGTGCa                                                                                                                                                >  2:556010‑M2/144‑149 (MQ=255)        gaaaaattagataaatattgacaatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcaaaatgaaaaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGa                                                                                                                                            <  2:11333‑M2/10‑1 (MQ=255)                       ttttgccaatttggtaaaacaggtgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCttttt                                                                                                                             <  1:16972‑M2/25‑1 (MQ=255)                             caatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAGGATAATAGATTCTTTTTCGTTTg                                                                                                                       >  1:240707‑M2/119‑149 (MQ=255)                              aatttggtaaaacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGt                                                                                                                      >  1:402081‑M2/118‑149 (MQ=255)                                        aacagttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTAt                                                                                                            <  1:767321‑M2/42‑1 (MQ=255)                                            gttgcatcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcacacgtgtgcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGt                                                                                                        <  1:701007‑M2/46‑1 (MQ=255)                                                catgacaacaggatatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactagtcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAAc                                                                                                    <  1:324625‑M2/50‑1 (MQ=255)                                                caaaaccacaagagatagcaaagacgagaccaacacgaaaccccaagagcagattgatcaaaaaaattaccgcactaggcccggatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAAc                                                                                                    <  1:5711‑M2/50‑1 (MQ=255)                                                 atcacaacatgagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTCTATGCGTCCACg                                                                                                   >  2:8837‑M2/99‑149 (MQ=255)                                                 atcacaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCACCg                                                                                                   >  2:288420‑M2/99‑149 (MQ=255)                                                    acaacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGa                                                                                                >  1:400660‑M2/96‑149 (MQ=255)                                                      aacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGaaa                                                                                              >  2:238644‑M2/94‑149 (MQ=255)                                                      aacaggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGaaa                                                                                              >  1:249466‑M2/94‑149 (MQ=255)                                                        caggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAAGGTGAAAcc                                                                                            >  1:202046‑M2/92‑149 (MQ=255)                                                         aggagatagcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCg                                                                                           >  1:315679‑M2/91‑149 (MQ=255)                                                                agcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGt                                                                                                  >  1:365268‑M2/84‑135 (MQ=255)                                                                agcaatgacgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGt                                                                                                  <  2:365268‑M2/52‑1 (MQ=255)                                                                       acgttaccgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCg                                                                             <  2:249466‑M2/73‑1 (MQ=255)                                                                        cgttaacgagtggacacttgataatcagattcatcaaaaaatttactgctctagtcccgtatattcgtgaagctaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGt                                                                            <  2:648953‑M2/74‑1 (MQ=255)                                                                              cgagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGCAACCGGCACCGGAAGTGCGGGAATTc                                                                      >  2:489303‑M2/70‑149 (MQ=255)                                                                               gagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCaaa                                                                                                                                              <  2:436178‑M2/8‑1 (MQ=255)                                                                               gagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCaaa                                                                                                                                              >  1:436178‑M2/69‑76 (MQ=255)                                                                               gagtggacacccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattagtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTAAAACCAGCACCGGAAGTTCGTGAATTCt                                                                     >  2:133243‑M2/69‑149 (MQ=255)                                                                                 ggggacacccgaagagcgcattgatcaaaaaatttcccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATGCTTTTTCGATTGTCTTGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTgg                                                                   <  1:437778‑M2/83‑1 (MQ=255)                                                                                       acccgaagagcagattgatcaaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCtgg                                                             >  1:136338‑M2/61‑149 (MQ=255)                                                                                        ctcgaagagcagattgatcaaaatatgtaccgcattaggcccgtattttcgtgaaggtaAGTGCAAAGATAATCGATTCCTTGTCGATTGGCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCTGGAATTCTGGGGCtggt                                                            <  2:378043‑M2/90‑1 (MQ=255)                                                                                            gagagccggttgatcaaaaaattctccgcactaggcccgtattttcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGtggat                                                        <  1:581181‑M2/94‑1 (MQ=255)                                                                                            aagagcagattgactaaaaaatttagcgcactaggcccgtatattcgtgaaggtaAGTGCAAAGCTAATCGATTCTTTTTCTGTTGTCTGGTTGTATGCGTCGACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGtggat                                                        <  1:708791‑M2/94‑1 (MQ=255)                                                                                                    ccgatctaaaaaatttaacgcacgagggccgtatattcgtgaaggtaAGTGGAAAGATATTCGATTGTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTgg                                                <  2:377139‑M2/102‑1 (MQ=255)                                                                                                          caaaaaaattaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGAGAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAgcgc                                          <  1:692934‑M2/108‑1 (MQ=255)                                                                                                           aaaaaatttaccgcactaggcccgtatatttgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCa                                         <  2:380275‑M2/109‑1 (MQ=255)                                                                                                           aaaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGCTTGTCTGGCTGTCTGCGTCAACGTGAAACCGGCACCGGAAGTCCGGGAATTCTGGGGCGGGTGGATAGCGCTCGGAGCGCa                                         >  2:300755‑M2/41‑149 (MQ=255)                                                                                                            aaaaatttaccgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAATGCGTGAATTCTGGGGCGGGAGGAGAGAGCgggaagatcgg                                        >  1:377139‑M2/40‑144 (MQ=255)                                                                                                            aaaaatgtaacgcactaggcccgtatattcgagaaggaaAGTACAAAGATAATCGATTCTTTTTCGATTGTCTGGCGGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAg                                        <  2:240707‑M2/110‑1 (MQ=255)                                                                                                                     ccgcactaggccctgatattcgtgaaggtaAGTGCAAACATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGt                               <  2:56063‑M2/119‑1 (MQ=255)                                                                                                                      cgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAATCCGGTGCCTTGATTGAACAAGTTGTGGGGCTGGTGGATGGAGCTGGAATCGCAGGAATCCCGtt                              <  1:382864‑M2/120‑1 (MQ=255)                                                                                                                      cgcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGtt                              <  1:246099‑M2/120‑1 (MQ=255)                                                                                                                       gcactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACTGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGttt                             >  1:743174‑M2/29‑149 (MQ=255)                                                                                                                       gcactaggcccgtatattcgtcaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGAAAGAATCCCtttt                             <  2:402081‑M2/121‑1 (MQ=255)                                                                                                                        cactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGt                                                                            >  2:107095‑M2/28‑101 (MQ=255)                                                                                                                        cactaggcccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGt                                                                            <  1:107095‑M2/74‑1 (MQ=255)                                                                                                                               cccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAACCCCGTTTTACCTACa                     <  2:641220‑M2/129‑1 (MQ=255)                                                                                                                                ccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTg                                                                    >  1:622254‑M2/20‑101 (MQ=255)                                                                                                                                ccgtatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTg                                                                    <  2:622254‑M2/82‑1 (MQ=255)                                                                                                                                   tatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTa                 >  1:578257‑M2/17‑149 (MQ=255)                                                                                                                                   tatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTa                 <  1:301390‑M2/133‑1 (MQ=255)                                                                                                                                   tatattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTa                 >  2:533613‑M2/17‑149 (MQ=255)                                                                                                                                     tattcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTTTTTTTTTTTTCTGTATGCGTCAACGTGAAACCGTCACCGGAAGTGCGTGGATTCTGGGGCTGGTGGTTGGCGCTGGAAGTGCCGGAATGCCGTTTTACCTACAGttatc               >  2:260140‑M2/15‑147 (MQ=255)                                                                                                                                      attcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCa              <  1:238644‑M2/136‑1 (MQ=255)                                                                                                                                        tcgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGt            >  1:512738‑M2/12‑149 (MQ=255)                                                                                                                                         cgtgaaggtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGtt           <  2:400660‑M2/139‑1 (MQ=255)                                                                                                                                                gtaAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTGGTCTg    >  1:368868‑M2/4‑149 (MQ=255)                                                                                                                                                  aAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTGGTCTGtt  <  2:572143‑M2/148‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                    TGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCTGAAGGTAAGTGCAAAGATAATCGATTCTTTTTCGATTGTCTGGCTGTATGCGTCAACGTGAAACCGGCACCGGAAGTGCGTGAATTCTGGGGCTGGTGGATGGAGCTGGAAGCGCAGGAATCCCGTTTTACCTACAGTTACCAGTTTGGTCTGTT  >  NC_000913_3_vch_tpiA/258538‑258831

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: ‑