New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	2549564 =	43 (1.430)	4 (0.130)	4/274	4.1	8.5%	noncoding (2549564/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	= 3216674	NA (NA)					noncoding (74/78 nt)	REP228 (repetitive extragenic palindromic) element; contains 2 REP sequences	REP228 (repetitive extragenic palindromic) element; contains 2 REP sequences
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

TCGCAAATGATAATGATTGTTAATCATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCCATCATCACGAAGGGTGTTGTAAACATGAAGGCCAGCC  >  NC_000913_3_vch_tpiA/3216536‑3216822                                                                                                                                           |                                                                                                                                                     tCGCAAATGATAATGATTGTTAATCATGATAACTGTAATCTATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCCCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTga                                                                                                                                            <  2:212570/149‑1 (MQ=39)   gaaaaTGATAATGATTGTTAATCATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTTAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTgaga                                                                                                                                          <  1:66605/147‑1 (MQ=255)   gCAAATGATAATGATTGTTAATCATGATAAATGCAAGCGCTTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAAGGCCTTATCCGGCGTACgtggaaga                                                                                                                                          >  2:171673/1‑144 (MQ=255)    cAAATGATAATGATTGTTAATCATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCTGGTATTATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGAt                                                                                                                                         <  1:66367/149‑1 (MQ=255)         gataatgatTGTTAATCATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTc                                                                                                                                    <  2:220336/149‑1 (MQ=255)            aatgatTGTTAATCATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCAc                                                                                                                                 <  2:13545/149‑1 (MQ=255)                      aaTCATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAAt                                                                                                                       >  1:328101/1‑149 (MQ=255)                       aTCATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATc                                                                                                                      <  1:292464/149‑1 (MQ=255)                         cATGATAAATGCAAGCGATTTGTAGAACTTATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCAt                                                                                                                    <  1:318498/149‑1 (MQ=255)                         cATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCAt                                                                                                                    >  1:488997/1‑149 (MQ=255)                          aTGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGACTCTTCTCAGGCATCATTACTCAACGCGGGATGCGGCGTGAAGGCCTTATCCGGCCTACGTGTGAGATGAGTTCGCGTTTAAAATTCAtt                                                                                                                   >  2:60786/1‑149 (MQ=255)                                 aTGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTAAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGGTGAGTCCACGTTTAAAAATCATTTTTacac                                                                                                            >  1:376369/1‑149 (MQ=255)                                      aGCGATTTGCAGAACTGCTATGTCTATAGTCTGATAAGACGAACCGCCCCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATTAGTCCACGAGTACAAATCATTTTTATACTTGCa                                                                                                       >  2:344300/1‑149 (MQ=38)                                             tGTAGTACTGATATGTCTATAGGCTGATAAGACGAACCGCCTCTTCTCAGGCAACATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCTGCCTACGTGTGAGATTAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGc                                                                                                <  2:45527/149‑1 (MQ=39)                                                      gATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAg                                                                                       <  1:213193/149‑1 (MQ=255)                                                         tggtttgtaGTCTGAGAAGACGATCCGCCTGTGTGCAGGCATCATTACTCAAGGCCCGATGCGGCGTGAATGCCTTATCCGGTCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCCCATATCAGata                                                                                    <  2:298296/142‑1 (MQ=255)                                                         atGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGata                                                                                    <  1:507740/149‑1 (MQ=255)                                                            tCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATaa                                                                                 >  1:254840/1‑149 (MQ=255)                                                            tCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATACGGCGAGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACCCTCATATCAGATATaa                                                                                 >  1:483797/1‑149 (MQ=255)                                                              tataGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCTTGAACGCCTTATTCGGCTTACGTGTGAGATGTGTTCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAAt                                                                               <  1:175776/149‑1 (MQ=255)                                                                gaGTCTGATAACAAGAACAGCCTCTTCTGATGCATCATTACTCAACGCCTGATTCGGCGTGAACGCCTTATCCGGCCTACGGGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTa                                                                             <  2:191008/148‑1 (MQ=255)                                                                  gTCTGATAAGGCGATCCGCCTCTTCTCAGGCATCATTACTCCACGTCGGATGCGGCGTGAACGCCTTATCCGGCTTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGa                                                                           <  1:125036/149‑1 (MQ=255)                                                                        tAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATc                                                                     >  2:458877/1‑149 (MQ=255)                                                                         aaGACGAACCGCCTCTACTCTGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCt                                                                    >  2:341115/1‑149 (MQ=255)                                                                             cGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAAtt                                                                <  2:488997/149‑1 (MQ=255)                                                                              gAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAAATATATCGAATTa                                                               >  1:358512/1‑149 (MQ=255)                                                                                    ccTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCaaa                                                         >  2:258558/1‑149 (MQ=255)                                                                                     ctctTCTCAGGCATCATTACTCATCGCCGGATGCGTCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAATAATTATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCaaaa                                                        <  1:99992/149‑1 (MQ=255)                                                                                               gCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGat                                              <  2:254840/149‑1 (MQ=255)                                                                                                 atcatTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGAAAAAGGAGGCTggttt                                            >  2:458951/1‑145 (MQ=255)                                                                                                     ttgcTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGc                                        <  1:287253/146‑1 (MQ=255)                                                                                                       aCTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCca                                      <  1:258558/149‑1 (MQ=255)                                                                                                         tCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCcatc                                    >  1:343004/1‑149 (MQ=255)                                                                                                            aCGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATAAGCcatcaac                                 >  1:135822/1‑147 (MQ=255)                                                                                                                   aTGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGAACAAGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCCATCATCACGAAgg                          <  2:384175/149‑1 (MQ=255)                                                                                                                      cggcgTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCCATCATCACGAAGGgtg                       <  1:341115/149‑1 (MQ=255)                                                                                                                        gcgTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCCATCATCACGAAGGGtgtt                     <  1:338698/149‑1 (MQ=255)                                                                                                                             aaCGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCCATCATCACGAAGGGTGTTGTaaa                <  2:328101/149‑1 (MQ=255)                                                                                                                               cGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCCATCATCACGAAGGGTGTTGTataaa              >  2:471007/1‑145 (MQ=255)                                                                                                                               agCCTTATCCGGCATACGGGGGAGAGGAGGTCACGTTTAAAAATCATTTTTACACTTGCAGGAACGATCATATCAGATATAAATTAGATATTTCTAATTAAGCAAAAGGAGGCTGATATGAGTCATCATCACGAAGGGTGTTGTAAACa              <  2:108047/148‑1 (MQ=255)                                                                                                                                       ccGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCCATCATCACGAAGGGTGTTGTAAACATGAAGgcc      <  2:289275/149‑1 (MQ=255)                                                                                                                                           ccTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATAGCTAATTAAGCTAAAGGAGGGTGATATGAGGCATCAGCACGAAGGGTGTTGTAAACATGAAGgccaggc  >  2:115042/1‑147 (MQ=255)                                                                                                                                           |                                                                                                                                                     TCGCAAATGATAATGATTGTTAATCATGATAAATGCAAGCGATTTGTAGAACTGATATGTCTATAGTCTGATAAGACGAACCGCCTCTTCTCAGGCATCATTACTCAACGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACGTGTGAGATGAGTCCACGTTTAAAAATCATTTTTACACTTGCAAGAACGCTCATATCAGATATAAATTAGATATATCTAATTAAGCAAAAGGAGGCTGATATGAGCCATCATCACGAAGGGTGTTGTAAACATGAAGGCCAGCC  >  NC_000913_3_vch_tpiA/3216536‑3216822

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.