New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_vch_tpiA 1068445 =26 (0.890)4 (0.140) 4/272 3.6 10.6% noncoding (92/98 nt) RIP92 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site RIP92 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
?NC_000913_3_vch_tpiA 4249453 = 43 (1.540)noncoding (103/125 nt) REP316 (repetitive extragenic palindromic) element; contains 3 REP sequences REP316 (repetitive extragenic palindromic) element; contains 3 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACTTCTGGCGGTGGAACGTCAACCAACTTTCTGCTTAACAACGCATTGAGTAAAATCGC  >  NC_000913_3_vch_tpiA/1068306‑1068588
                                                                                                                                           |                                                                                                                                               
aTCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAGGCTTGCCTGATGCGCGATGCTTGTCAGACCTACCAGAAGATTGCAATATATTGAATTTGCACTTGTTTGTAGCGCGGATACGCCGTTTAGGCCGCATCCggggtg                                                                                                                                        >  2:48761/1‑145 (MQ=25)
  aaccaccgGGTAACCGGCGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAt                                                                                                                                         <  2:51683/141‑1 (MQ=25)
  aaccaccGGGTAACCGGCGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCAt                                                                                                                                         <  2:53515/145‑1 (MQ=25)
     cgccgGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTAGCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAAGCGTTTACGCCACATCCGGCATGAACaa                                                                                                                                   >  2:171172/1‑149 (MQ=255)
            tACCCGGTGGTTTATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCATGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTAc                                                                                                                            <  2:379103/149‑1 (MQ=255)
                         aTACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATc                                                                                                               <  1:166261/149‑1 (MQ=255)
                                    aaaTGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCgg                                                                                                    >  1:394127/1‑149 (MQ=255)
                                            gCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTGTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCACCAATCTGCACCGCCGGCAACCCcg                                                                                            >  2:329031/1‑149 (MQ=255)
                                                  ctgtttcgcgATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGTATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGtt                                                                                      <  1:337417/143‑1 (MQ=255)
                                                    gATGCGCGATGGTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGtttt                                                                                    >  1:324620/1‑149 (MQ=255)
                                                         gcgATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGtt                                                                               <  1:406135/149‑1 (MQ=255)
                                                                ttATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTCCTGTTTATGGCt                                                                        >  1:70561/1‑149 (MQ=255)
                                                                     aGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCtga                                                                   <  2:145583/149‑1 (MQ=255)
                                                                         cTACCAGAAGATTGGAATATATTGAATTTGCACTGTTTTGTAGGCCGGGTAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGaa                                                               <  2:25181/149‑1 (MQ=255)
                                                                         cTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGaa                                                               <  1:91670/149‑1 (MQ=255)
                                                                         cTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGaa                                                               >  2:91670/1‑149 (MQ=255)
                                                                             cAGAAGATTGCAATATAATGAATTTGCACTGTTTTGTAGGACGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGCCTCCTGAGGaacgac                                                           >  2:164928/1‑149 (MQ=37)
                                                                               gaagaTTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACtt                                                         >  2:92663/1‑149 (MQ=255)
                                                                                       cAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCCTGAACAATGCGTCCGTTGTCAACAATCTGCCCCGCCGGTAACCCCCGCGCTTTTCTGTTTATGGCCCCTGATGAACAACTTCTGGCGGt                                                 >  2:144926/1‑149 (MQ=37)
                                                                                       cAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGCTTTCTGTGTATGGCTCCTCATGCACCACTTCTGACgat                                                 >  2:507287/1‑147 (MQ=25)
                                                                                                           gTTTTGTAGACCAGATAAGGCGTTTACGCCGCATCCGGCACGAACAATATCTACGTTGTCAACAATCTGCACCACCAGAAACACCAGCGGTCTTCTGTTAATGGCTCCTAATTAACAACTCCTGGCGGCGCAACGTCAACATACTTCCt                             >  2:47100/1‑149 (MQ=19)
                                                                                                                  atgCCGGATGCGGCGTAAACGCCTTATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACTTCTGGCGGTGGAACGTCAACCAACTTTCTGCTTaa                       <  2:61566/146‑1 (MQ=255)
                                                                                                                          tAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACTTCTGGCGGTGGAACGTCAACCAACTTTCTGCTTAACAACGCAtt              <  2:357864/149‑1 (MQ=255)
                                                                                                                            aGGCGTTTACGCCGCATCTGGTATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACTTCTGGCGGTGGAACGTCAACCAACTTTCTGCTTAACAACGCATTGa            <  1:28471/149‑1 (MQ=255)
                                                                                                                                 tttACGCTGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACTTCTGGCGGTGGAACGTCAACCAACTTTCTGc                           >  2:295237/1‑129 (MQ=255)
                                                                                                                                 tttACGCTGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACTTCTGGCGGTGGAACGTCAACCAACTTTCTGc                           <  1:295237/129‑1 (MQ=255)
                                                                                                                                      gccgcATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACTTCTGGCGGTGGAACGTCAACCAACTTTCTGCTTAACAACGCATTGAGTAAAATcgc  <  1:92663/149‑1 (MQ=255)
                                                                                                                                           |                                                                                                                                               
ATCACCGCCGGTTACCCGGTGGTTGATACTGATGACAAATGTAAGCTTGCCTGATGCGCGATGCTTATCAGGCCTACCAGAAGATTGCAATATATTGAATTTGCACTGTTTTGTAGGCCGGATAAGGCGTTTACGCCGCATCCGGCATGAACAATGCGTACGTTGTCAACAATCTGCACCGCCGGTAACCCCGGCGGTTTTCTGTTTATGGCTCCTGATGAACAACTTCTGGCGGTGGAACGTCAACCAACTTTCTGCTTAACAACGCATTGAGTAAAATCGC  >  NC_000913_3_vch_tpiA/1068306‑1068588

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: 
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.