New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	508586 =	NA (NA)	5 (0.170)	5/274	3.6	12.2%	noncoding (5/236 nt)	REP48 (repetitive extragenic palindromic) element; contains 5 REP sequences	REP48 (repetitive extragenic palindromic) element; contains 5 REP sequences
	?	NC_000913_3_vch_tpiA	3512601 =	36 (1.200)					noncoding (3512601/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCTTTCATCACCTGTTGCAGGAAGGCTTCATC  >  NC_000913_3_vch_tpiA/3512453‑3512747                                                                                                                                                     |                                                                                                                                                   aaaTGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCGGCATCCGGCa                                                                                                                                                    >  1:484605/1‑149 (MQ=255) aaaTGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCa                                                                                                                                                    <  2:260459/149‑1 (MQ=255)             aaaaaCCGGGCTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAgcgc                                                                                                                                        >  2:65622/1‑149 (MQ=255)                      gTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCa                                                                                                                               <  1:283368/149‑1 (MQ=255)                            ccGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGCACAAAGCGCAATTTGCCAGCAATa                                                                                                                         >  1:459924/1‑149 (MQ=255)                             cGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTCCGCTTATCAGTCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCCAAAAAGGCGTTCACACCGCATCCGGCATGAAAAAAGCGCAATTTGCCAGCAATAg                                                                                                                        >  1:73924/1‑149 (MQ=39)                             cGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAg                                                                                                                        >  1:323130/1‑149 (MQ=255)                                tttCAAAGTGATGATAAAAGCAAAATTTCCTGAGGCGCTACGCGTATCAGGCCTACATTTCGTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGa                                                                                                                     >  2:547340/1‑149 (MQ=37)                                 ttCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGTATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGaa                                                                                                                    <  1:150917/149‑1 (MQ=255)                                    agagTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGacctc                                                                                                                 >  2:273668/1‑145 (MQ=255)                                                  aGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACaa                                                                                                   >  2:479830/1‑149 (MQ=255)                                                  aGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAAGCGTTCACGCCGCATCCGGCATGAACAAAGCCCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACaa                                                                                                   >  1:508604/1‑149 (MQ=255)                                                        aTTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATTCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCaa                                                                                             <  1:448291/149‑1 (MQ=255)                                                             cTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCt                                                                                        >  1:410911/1‑149 (MQ=255)                                                               gATGCGCTACGCGTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGCCATGAACAAAGCGCAAGTCGCCAGCAACAGTCAATTACGCCTTCGCCACAAAACCAATCGCTTc                                                                                      <  2:34097/149‑1 (MQ=37)                                                                  gcgcTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATTTTCAAATTGTAATTTGCTAGTAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTa                                                                                   <  1:139790/149‑1 (MQ=38)                                                                     cTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTacac                                                                                <  1:479830/149‑1 (MQ=255)                                                                      tccGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGCTAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCAAGCAATAGTGAATTACGGCTCCCGCAAACAACCAATCTCTTCGTCCAcc                                                                               >  2:384755/3‑149 (MQ=37)                                                                       tcGCTTATCAGGCATACAGTTCTTTGCAGTATGTGGATGACTTTGTAGGCCGCATAAGGCGTTCAGGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTACCTACAAAACCAATCGCTTCGTACACCg                                                                              <  2:62785/148‑1 (MQ=25)                                                                          cTTATCAGCCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCtt                                                                           <  1:59015/149‑1 (MQ=255)                                                                           ttATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCCCAAAACCAATCGCTTCTTACACCGCttt                                                                          >  2:288451/1‑149 (MQ=255)                                                                           ttATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCttt                                                                          <  1:65622/149‑1 (MQ=255)                                                                              tCAGGCCTACACTCCCTTGGGATATGTGCATTACTTTGGAGGCCGGATAAGTCGTTCACGCCGCACCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAg                                                                       <  2:362217/149‑1 (MQ=38)                                                                                             cTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCAAGCAATAGTGAATTACGGCTTCGCCACAAAACAAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTg                                                        >  1:253526/1‑149 (MQ=255)                                                                                                    tatGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTg                                                 >  2:540999/1‑149 (MQ=255)                                                                                                    tatGTGAATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCATAAACCCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTg                                                 <  2:378179/149‑1 (MQ=255)                                                                                                      tgtgCATTGCTTTGTAATCCGTAGAAGGCGTCCACGCCGCATCCGGCATGAACAACGCGCAAGTTGCCAGCAATAGTGAATTACGCCTTCGCCCCAAAACCACACGCTTCCTACACCGCTTTTAGCGTCCGCGAAGCGTGCACGCTCGc                                               >  2:480482/1‑149 (MQ=21)                                                                                                          cATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTACCAGCAATAATAAATTACGGCTTCGCCACAAAACCAATAGCTTCGTACACCGCTTTTAGCGTACAGGAACCGTGCACGCTGGCtttt                                           >  1:87149/1‑149 (MQ=37)                                                                                                                     aGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTTCGCGCTGCCTTTTTCCGCGCCATc                                >  2:294694/1‑149 (MQ=255)                                                                                                                       gCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCtt                              <  2:75956/149‑1 (MQ=255)                                                                                                                       gCCGGAGTAGGCGTTCACTCCGTATCCGGCATGAAACATGCTCAATTTGCCAGTAATTGTGAATTACGGCTTCGCCACAAAACCATTCGCTTCGTACTCCGCTTTTCGCGTACGGGACGCGTGCGCGATGGATTTTTGTTGGCCATCtt                              <  2:480520/149‑1 (MQ=255)                                                                                                                              aaGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCTTTCATCAc                       <  1:273668/149‑1 (MQ=255)                                                                                                                                ggCGGTCACGCCGAATCGTGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCGTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCTTTCATCACCt                     <  2:255122/149‑1 (MQ=255)                                                                                                                                 gCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCTTTCATCACCTg                    >  2:518968/1‑149 (MQ=255)                                                                                                                                    ttCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAAAAATGAATTACGGCTACGAAACAAAACCAAACACTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGGGCGCTGGCTTTTTCCCCGCCATCTTTCATCACCTGTTg                 >  1:153201/1‑149 (MQ=38)                                                                                                                                        cgccgcATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGTCTTCGCCACAAAACCAATCGCATCGAACACCACTTTTAGCGTACAGGAAGCGTGCGCGCTGGCTTTTTCCGCCCCATCTTTCCTCACCTTTTTCAgg             >  1:102978/1‑149 (MQ=255)                                                                                                                                                   gCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCACGACTCATTACCTGTTGCAGGAAGGCTTCATc  <  2:396132/149‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                   AAATGAGGATAAAAAAACCGGGTTTCCCCGGTTTCAGAGTGATGATAAAAGCAAAATTGCCTGATGCGCTACGCTTATCAGGCCTACATTTCCTTGCAATATGTGCATTACTTTGTAGGCCGGATAAGGCGTTCACGCCGCATCCGGCATGAACAAAGCGCAATTTGCCAGCAATAGTGAATTACGGCTTCGCCACAAAACCAATCGCTTCGTACACCGCTTTTAGCGTACGGGAAGCGTGCGCGCTGGCTTTTTCCGCGCCATCTTTCATCACCTGTTGCAGGAAGGCTTCATC  >  NC_000913_3_vch_tpiA/3512453‑3512747

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.