New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	4542712 =	26 (0.580)	5 (0.120)	4/272	6.2	13.1%	noncoding (4542712/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	4543026 =	42 (0.990)					noncoding (4543026/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAA  >  NC_000913_3_vch_tpiA/4542576‑4542859                                                                                                                                         |                                                                                                                                                    ttATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAACACATCCCATAAACGCAGAATTACCAACAGAGGAGGATAGAATTAACTTAGTGAGAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACt                                                                                                                                         >  1:156056/1‑149 (MQ=255)        gCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATACCCGAAAAATTACAAAGAGAAGCAGCTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTAGCGCCCAACTGCCCaaa                                                                                                                                  >  2:127738/1‑147 (MQ=255)           aGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCa                                                                                                                               <  1:305886/149‑1 (MQ=255)                     ctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGtt                                                                                                                     >  1:103127/1‑149 (MQ=255)                     ctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGACAAACTGTCCATATCATAAATAAGtt                                                                                                                     >  1:393618/1‑149 (MQ=255)                                       gggAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGc                                                                                                   <  2:7260/149‑1 (MQ=255)                                                                 aaaTTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATGCAAGACAATTGGGGCCAAACTGTCCATATCATAAACACGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACaaaaa                                                                         >  2:475925/1‑149 (MQ=255)                                                                    ttAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTATCAAGCATAAAAATATTAAAAAACCACAAAAAGcc                                                                      >  2:282426/1‑148 (MQ=255)                                                                    ttAAAAAGAGAAGAGGTTTGATTGAACTTATTCATAATAAAGGTATAAAAACAAATAAATACACGACAATTGGGGCCAAACCGTCTATATCATAAATAAGTTACGTATTTTTGCTCAAGCATAAAAATATTAAAAAACGACAAAAAGcg                                                                      >  1:621366/1‑148 (MQ=255)                                                                                     ttGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATg                                                     >  1:295177/1‑149 (MQ=255)                                                                                      taaTTTAACTTATTGAAAACTATTTAAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGt                                                    <  2:393618/147‑1 (MQ=255)                                                                                         ttttACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTaaa                                                 >  1:355962/1‑149 (MQ=255)                                                                                               ttATTGATAATCTAGTTAAAAAAACAAATAAATACTAGAATAGTAGGGCCAAACCGTCCACATCACAAATAAGTTACGTATTGTTTCTCAAGCGTAAAAATATTAAAAAACGACGAAAAGCATCTAACCGGTTGATATGGAAATTAttt                                           <  2:621366/149‑1 (MQ=255)                                                                                                  ttGATAATAAAGTTAAAAAAACAAATAAAGGCAAGACAATAGGGGCCAAACGGTCAATAGCATAAGTAAGTGACGTATTTTTTCTGAAGCATAAAAATATTAAAAAACGACAAAAAACATCTAACTGTTTGATATGTAAATTATTTCTa                                        >  2:581964/1‑149 (MQ=255)                                                                                                    gATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTAtt                                      <  1:438794/149‑1 (MQ=255)                                                                                                        ataaAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAATTGTTTGATATGTAAATTATTTCTATTGTaa                                  >  1:362258/1‑149 (MQ=255)                                                                                                        ataaAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTCCTATCGTaa                                  >  2:149920/1‑149 (MQ=255)                                                                                                         taaAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACAACCAACAGCAACTATCTGTTTGATATGTAAATTATTTCTATTGTaaa                                 >  1:538573/1‑149 (MQ=255)                                                                                                             gTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAaattaa                             >  1:264449/1‑149 (MQ=255)                                                                                                              ttAAAAAAACAAATAAATACAAGACAATGGGGGCAAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATAATAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAaattaat                            <  2:765139/149‑1 (MQ=255)                                                                                                                aaaaaaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAattatt                                            <  2:577706/131‑1 (MQ=255)                                                                                                                aaaaaaaCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAattatt                                            >  1:577706/1‑131 (MQ=255)                                                                                                                        aaataaatACAAGACAATGGGGGCCAAACTGACCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAAAATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCAc                  <  2:30003/149‑1 (MQ=255)                                                                                                                        aaataaatAAAAGACAATGGGGGCCAAACCGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCAc                  <  2:156056/149‑1 (MQ=255)                                                                                                                            aaataCAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAATTAACGTCATTAAGCATTTAACTGTTTGATATGTAAAGTATTTCTATTGTAAATTAATTTCACATCACCTcc              <  1:205363/149‑1 (MQ=255)                                                                                                                                        aTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTaaa  <  1:230350/149‑1 (MQ=255)                                                                                                                                         |                                                                                                                                                    TTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAA  >  NC_000913_3_vch_tpiA/4542576‑4542859

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.