New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	3423376 =	50 (1.050)	7 (0.150)	5/282	6.3	12.1%	noncoding (3423376/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	= 4213192	52 (1.110)					noncoding (4213192/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TTTCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGA  >  NC_000913_3_vch_tpiA/3423229‑3423518                                                                                                                                                     |                                                                                                                                               tttCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGAt                                                                                                                                               >  2:714205/1‑149 (MQ=255) tttCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGAt                                                                                                                                               <  2:418964/149‑1 (MQ=255)      gATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACACCAGATAAAAc                                                                                                                                          >  1:456668/1‑149 (MQ=255)                cGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCa                                                                                                                                <  1:784906/149‑1 (MQ=255)                   ttgatttgatGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGGGTGTTCACACACAAACAACAGATAGAACAAAAGTCACAggc                                                                                                                             >  1:179746/1‑147 (MQ=14)                     gatttgatGTCTGGCAGTTTATGGCGGGCGTCCTGCCCACCACCGTGCGGGCCGTTGCGTCACAACGTTCGAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGCGTGCTCACCGACAAAAAACCGAAAACACAAAAGGCCCacgcct                                                                                                                           >  1:712806/1‑144 (MQ=14)                      atttgatGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTc                                                                                                                          <  1:652008/149‑1 (MQ=255)                         tgatGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCAGCGGCTTTGTCCT‑ACTCGGGAGAGTGTTAACCTACACACCACCGATAAAACAAAAGGCCCCGTCTTCCGa                                                                                                                       >  2:255754/1‑149 (MQ=14)                         tgatGTCTGGCAGTTTATGGCCGGCGTCCTGCCCGCCACCCCCCGGGCCGTTGCGTCGCAACGTTCAAAAAAGATACCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGa                                                                                                                       <  2:635914/149‑1 (MQ=14)                          gatGTCGGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGAc                                                                                                                      <  2:540499/149‑1 (MQ=255)                                tGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGcc                                                                                                                                  <  1:643686/131‑1 (MQ=40)                                tGGCAGTTTAGGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGcc                                                                                                                                  >  2:643686/1‑131 (MQ=255)                                    aGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCtttt                                                                                                            <  1:388870/149‑1 (MQ=40)                                     gTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTg                                                                                                           <  1:660870/149‑1 (MQ=40)                                     gTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTg                                                                                                           >  2:72155/1‑149 (MQ=40)                                       ttATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGtt                                                                                                         <  1:72155/149‑1 (MQ=255)                                       ttATGGCGCGCGTCCTGCCCGCCCCCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGtt                                                                                                         <  1:384914/149‑1 (MQ=255)                                                 cgTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATg                                                                                               <  2:409765/149‑1 (MQ=255)                                                     cTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTg                                                                                           >  1:657415/1‑149 (MQ=255)                                                      tGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTgg                                                                                          >  2:239471/1‑149 (MQ=255)                                                         ccGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTTTTTGATGTCTGGCAg                                                                                       >  1:216804/1‑149 (MQ=255)                                                           gCCACCCCCCGGGCCGTTGATTCGCAACGTACAGATCCGCCCACGCCGGAGTTGTCTTGACGC‑AGTGAGTCACGACCGTTGCTCATTAGATAAATCGAAATGCCCACTCTTCCGGCTTAGCCTTTTGTTTTATTTGATGTCTGGCAGtt                                                                                     <  2:410619/149‑1 (MQ=255)                                                                ccTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAACCCTAAGTCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTa                                                                                >  1:617852/1‑149 (MQ=255)                                                                     gggCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGc                                                                                                                 <  1:384805/111‑1 (MQ=255)                                                                     gggCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGc                                                                                                                 >  2:384805/1‑111 (MQ=255)                                                                        ccGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCa                                                                        <  1:383968/149‑1 (MQ=255)                                                                                  gCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGAcc                                                              >  2:12170/1‑149 (MQ=255)                                                                                     aCGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCca                                                           <  1:467001/149‑1 (MQ=255)                                                                                       gTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCcaca                                                         <  1:93053/149‑1 (MQ=255)                                                                                        ttCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAGGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCacac                                                        >  1:197154/1‑149 (MQ=255)                                                                                              tCCGCTCCCGGCGGATTTGCCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCAt                                                  <  1:214556/149‑1 (MQ=255)                                                                                               cccgtgccGGCGGATTTGTCCT‑ACGCGGGAGAGTGTTCATCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATc                                                 <  2:338630/143‑1 (MQ=255)                                                                                                   tCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGgcg                                             >  1:240890/1‑149 (MQ=255)                                                                                                   tCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTAATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGccg                                             >  2:649768/1‑149 (MQ=255)                                                                                                     ccGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAGCAGATAAAACAAAAGGCCCAGTCTTCCGGCTGAGCCTTTTGTTTTATTTGATGCCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACCCTACCATCAgcgat                                           >  2:1720/1‑147 (MQ=14)                                                                                                              ttGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTGCTCTCGCATGGGGAGACCCCACACTACCATCGGCGCGACGGCGttt                                  <  2:111404/149‑1 (MQ=255)                                                                                                                   cT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGAccc                                                             <  1:300426/117‑1 (MQ=255)                                                                                                                   cT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGAccc                                                             >  2:300426/1‑117 (MQ=255)                                                                                                                       cTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTg                          >  1:395170/1‑149 (MQ=255)                                                                                                                            gagaGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTc                     <  2:617852/149‑1 (MQ=255)                                                                                                                                 tgtTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTCCGGCGTTTCACTTCTGAGTTCGGCAt                >  2:463034/1‑149 (MQ=255)                                                                                                                                   tgcACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGGTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCTCACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATgg              <  1:669072/147‑1 (MQ=255)                                                                                                                                      aCCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGt           >  2:522926/1‑149 (MQ=255)                                                                                                                                      aCCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTAGATGAACGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGt           >  1:582699/1‑149 (MQ=255)                                                                                                                                       ccGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACACCACACTACCATCAGCGCTACGGCGTTTCACTTCTTAGTTAGGCATGGGGTc          >  2:658544/1‑149 (MQ=255)                                                                                                                                        cGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACAACGAACGACCCTACGGTAGTGCACGTCTGACTTGCGCATgggggct         >  2:521544/1‑146 (MQ=14)                                                                                                                                         gACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACCTCTGAGTTCGGCCTGGGGTCAg        >  1:532200/1‑149 (MQ=255)                                                                                                                                             aacaacAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTgg    <  2:456668/149‑1 (MQ=40)                                                                                                                                              acaacaGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTAGGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTggg   >  1:788472/1‑149 (MQ=255)                                                                                                                                               ccactaaTAAGACAAAAGGCCCAGTCTTGCGACTTAGCCTCTTGTTTAATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGa  <  2:395170/143‑1 (MQ=11)                                                                                                                                               caacaGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGa  <  2:317196/149‑1 (MQ=39)                                                                                                                                                     |                                                                                                                                               TTTCGGATGGCCTTTCGCTTGATTTGATGTCTGGCAGTTTATGGCGGGCGTCCTGCCCGCCACCCTCCGGGCCGTTGCTTCGCAACGTTCAAATCCGCTCCCGGCGGATTTGTCCT‑ACTCGGGAGAGTGTTCACCGACAAACAACAGATAAAACAAAAGGCCCAGTCTTCCGACTGAGCCTTTTGTTTTATTTGATGTCTGGCAGTTCCCTACTCTCGCATGGGGAGACCCCACACTACCATCGGCGCTACGGCGTTTCACTTCTGAGTTCGGCATGGGGTCAGGTGGGA  >  NC_000913_3_vch_tpiA/3423229‑3423518

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ 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.