New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	= 3944978	NA (NA)	8 (0.180)	7/274	5.1	23.0%	noncoding (3944978/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	= 4038811	28 (0.590)					noncoding (4038811/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.

CCATGCACCGAAGCTGCGGCAGCGACACTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGC  >  NC_000913_3_vch_tpiA/4038663‑4038874                                                                                                                                                     |                                                                ccATGCACCGAAGCTGCGGCAGCGACACTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCt                                                                 >  1:45889/1‑149 (MQ=255)      cACCGAAGCTGCGGCAGCGACACTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCg                                                            <  1:392132/149‑1 (MQ=255)       aCCGAAGCTGCGCCAGCGACACTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCgg                                                           >  2:728752/1‑149 (MQ=255)         cgcaGCTGCGGCAGCGACACTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGaa                                                         <  1:486649/146‑1 (MQ=255)             gCTGCGCCAGCGACACTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGAcc                                                     <  1:728752/149‑1 (MQ=255)                 gggCAGCGACACTATGTGTTGTTGGGTTGGGGAGCGTTCTGGAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATACAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAgg                                                 <  2:351509/148‑1 (MQ=255)                     aGCGACACTATGTGTTGTGGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTTCTGTGAGGCATGCTCGAGGTATCAGAAGTGCGAATGCTGACATCCGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGttt                                             <  2:631841/149‑2 (MQ=14)                       cGACACTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCt                                           <  2:473595/149‑1 (MQ=39)                         acacTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGt                                         >  1:218250/1‑149 (MQ=39)                         acacTAGGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGt                                         <  1:358224/149‑1 (MQ=37)                             tATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTGTCAGACGTGCGGATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTTCaa                                     >  2:312895/1‑149 (MQ=255)                             tATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAAGGTTCCTggcaaa                                     >  2:287629/1‑144 (MQ=19)                              aggtgtTGTTGGGTAGGGGAGCGGTCTGGAAGCCTGGGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAAc                                    <  2:68256/147‑1 (MQ=9)                                 tgttgtTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCAGGAAGACCAAGGGTTCCTGTCGAACGtt                                 >  2:281956/1‑149 (MQ=18)                                            aggggaggggTCTGTAAGCCGGTGAAGGTTTGCGGTGAGGCATGCTGGAGGTATCAGAAGCGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCTGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAg                      <  1:497075/149‑1 (MQ=11)                                            aGGGGAGCGTTTCGTAAGTCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAg                      <  2:263134/149‑1 (MQ=12)                                              gggAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAGGTAACGATAAAGCGGGTGAGAAGCGCGCTCGCCGGAAGACCACGGGTTCCGGTCCCACGTTAGTCGGGGCAggg                    >  1:218333/1‑149 (MQ=11)                                               ggAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGt                   <  2:384500/149‑1 (MQ=32)                                               ggAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGt                   <  2:729842/149‑1 (MQ=32)                                                 aGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGTTGa                 <  2:218250/149‑1 (MQ=17)                                                 aGCGTTATGAAAGCCTGTGAAGGTGGGCCGTGAGGCATGCTGTAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCTCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGa                 <  1:92270/149‑1 (MQ=11)                                                    gTTCTGTAAGCGTGTGGAGGTGTGCTGTGGGGCATGCTGGAGGTATCAGGAGTGCGAATGCTTACATAAGTAACGATAAAGAGGGAGAAAAGCCCGCTCGCCGGAAGACAAAGGGTTCCTGTCCAACGTTACTCGCGGAAGGGTGAGTc              >  2:755083/1‑149 (MQ=11)                                                     ttCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCg             >  1:377828/1‑149 (MQ=32)                                                     ttCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGAAATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTGGCCGGAAGACCAAGGGTTCCTGTTCAACGTTAATCGGGGAAGGGTGAGTCg             >  2:520006/1‑149 (MQ=255)                                                       ctcgaaGCCTTTGAAGGTGTTTTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTTACATAAGTAACGATAAAGCGGGTGAAAAGTCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGAc           <  2:271283/145‑1 (MQ=11)                                                        tGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGAcc          <  1:27178/149‑1 (MQ=32)                                                             gCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTaa     >  1:620687/1‑149 (MQ=32)                                                               cTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGGGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAgg   >  2:717529/1‑149 (MQ=17)                                                                tgtgAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGc  >  2:730854/1‑149 (MQ=32)                                                                                                                                                     |                                                                CCATGCACCGAAGCTGCGGCAGCGACACTATGTGTTGTTGGGTAGGGGAGCGTTCTGTAAGCCTGTGAAGGTGTGCTGTGAGGCATGCTGGAGGTATCAGAAGTGCGAATGCTGACATAAGTAACGATAAAGCGGGTGAAAAGCCCGCTCGCCGGAAGACCAAGGGTTCCTGTCCAACGTTAATCGGGGCAGGGTGAGTCGACCCCTAAGGC  >  NC_000913_3_vch_tpiA/4038663‑4038874

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.