New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	4108571 =	NA (NA)	4 (0.140)	4/272	3.6	NA	noncoding (1/98 nt)	RIP302 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP302 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
	?	NC_000913_3_vch_tpiA	4108596 =	NA (NA)					noncoding (26/98 nt)	RIP302 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site	RIP302 (repetitive extragenic palindromic) element; contains 2 REP sequences and 1 IHF site
Rejected: Coverage evenness skew score above cutoff.

CATCATCGACGCTATCGAAAACATGAAGCGTCCGTTCAAAGGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAGCGCACTTTGTCAGCAATATGAGGCGGATTTCTTCCGCCT  >  NC_000913_3_vch_tpiA/4108439‑4108717                                                                                                                                     |                                                                                                                                                   catcatCGACGCTATCGAAAACATGAAGCGTCCGTTCAAAGGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGcgcttcgct                                                                                                                                    <  2:460518/149‑1 (MQ=255)       cGAAGCTATGGAAAACATGAAGCGTACGTTCAAATGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTGACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAg                                                                                                                              <  2:23846/149‑1 (MQ=255)                 gAAAACATGAAGCGTCCGTTCAAAGGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGa                                                                                                                    >  1:41365/1‑149 (MQ=255)                       aTGAAGCGTCCGTTCAAAGGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTg                                                                                                              >  1:451752/1‑149 (MQ=255)                        tGATGCGTTCTTTTAAAGGTGACTCGCTCGACTGCGCGTAAACACTGTATCAATGATTTTGGAAAAAGGCAGATCTCTTGACCTTGAAATCGATGACAGAAGCAACCATGCCTGATGCGCTTCGCTTATCAGGTCTACATCTATTCTgt                                                                                                             <  2:314152/149‑2 (MQ=255)                                  gTTCAAAGGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTACTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTCCCCTTATCGAGCCTACATGAATTCTGCACTCTATTgc                                                                                                   >  2:502789/1‑148 (MQ=255)                                      aaaGGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCGTGAAACCGGTGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAAGTTATGGAGttt                                                                                               >  1:56542/1‑149 (MQ=39)                                        aGGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAAGTTATTGAATTTGc                                                                                             >  1:97379/1‑149 (MQ=255)                                                  ctggACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGt                                                                                   <  2:457542/149‑1 (MQ=255)                                                             gAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTCCAGGCGATTACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATaa                                                                        >  1:358333/1‑149 (MQ=37)                                                              aaaaaaCTGTATTAATCATTTCGGACAAAGTCATATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAg                                                                       <  1:212369/149‑1 (MQ=255)                                                                   aCTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGtt                                                                  <  2:41365/149‑1 (MQ=255)                                                                         ctAAGGATTTTAGAAAAAGGGACAGTCCTTTACCCTGAAACCGATGACACAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGcgcc                                                            <  1:422806/148‑1 (MQ=25)                                                                          tAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGcgccg                                                           >  1:50645/1‑149 (MQ=255)                                                                           aaTGCTTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAGTTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCTGATAAGGCGTTCGcgccgc                                                          >  1:487807/1‑149 (MQ=255)                                                                                          aGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACaa                                           >  1:130796/1‑149 (MQ=255)                                                                                            gCAGATTCCTTTACCCTGAAACCGATGACATAACCAAAAATGCCAGCAACACCGTACTAATCAGGCCTACATGAACTCCGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAg                                         <  1:144997/149‑1 (MQ=18)                                                                                             cAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAgc                                        <  2:130796/149‑1 (MQ=255)                                                                                             cAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAgc                                        <  1:440858/149‑1 (MQ=255)                                                                                                         cccTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACGTGAATTATGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAGCGCACTTTGTAAg                            >  2:69655/1‑149 (MQ=255)                                                                                                              aaaCCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAGCGCACTTTGTCAGCAata                       <  1:296745/149‑1 (MQ=255)                                                                                                                      gACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAGCGCACTTTGTCAGCAATATGAGGCgg               >  1:336264/1‑149 (MQ=255)                                                                                                                       aCAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGACTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAGCGCACTTTGTCAGCAATATGAGGCGGa              >  2:451036/1‑149 (MQ=255)                                                                                                                          gAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGGAATGTCGTTCGCTCCGCATCCGGCATGGACAAAGCGCACTTTGTCAGCAATATGAGGCGGAttt           >  1:504096/1‑149 (MQ=25)                                                                                                                               aaaaaTGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAGCGCACTTTGTCAGCAATATGAGGCGGATTTCTTcc      >  2:199555/1‑149 (MQ=255)                                                                                                                                   aTGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGAAAACTGTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAGCGCACTTTGTCAGCAATATGAGGCGGATTTCTTCCGCCt  >  1:146619/1‑149 (MQ=255)                                                                                                                                     |                                                                                                                                                   CATCATCGACGCTATCGAAAACATGAAGCGTCCGTTCAAAGGTGACTGGCTGGACTGCGCGAAAAAACTGTATTAATGATTTCGGAAAAAGGCAGATTCCTTTACCCTGAAACCGATGACAGAAGCAAAAATGCCTGATGCGCTTCGCTTATCAGGCCTACATGAATTCTGCAATTTATTGAATTTGCAAACTTTTGTAGGCCGGATAAGGCGTTCGCGCCGCATCCGGCATGGACAAAGCGCACTTTGTCAGCAATATGAGGCGGATTTCTTCCGCCT  >  NC_000913_3_vch_tpiA/4108439‑4108717

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.