New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	1061349 =	35 (0.780)	4 (0.090)	4/272	6.2	10.3%	noncoding (1061349/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	1061384 =	37 (0.880)					noncoding (1061384/4641682 nt)	repeat_region	repeat region
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

ACTACGACGATTGTCAGGGGCATCCGATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTTGGCAGGGGCAGTGGTTTCTGACCGC  >  NC_000913_3_vch_tpiA/1061240‑1061532                                                                                                                                                 |                                                                                                                                                     aCTACGACGGTTGTCAGTGGCATCCGATGTAGTTTGAGAAAATCGAACGCTTCCACGGTGGGCCTGGCTCGCAAAAGTATCTGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTg                                                                                                                                                  <  2:223138/149‑1 (MQ=255)      gacgaTTGTCAGGGGCATCCGATGTGGTTTGAGAACATCGAGCGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCa                                                                                                                                             >  1:775111/1‑149 (MQ=255)      gacgaTTGTCAGGGGCATCCGATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGGGTCa                                                                                                                                             >  1:525542/1‑149 (MQ=255)      gacgaTTGTCAGGGGCATCCGATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCa                                                                                                                                             >  2:136191/1‑149 (MQ=255)      gacgaTTGTCAGGGGCATCCGATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCa                                                                                                                                             >  2:42599/1‑149 (MQ=255)      gacgaTTGTCAGGGGCATCCGATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCa                                                                                                                                             <  2:474219/149‑1 (MQ=255)       acgaTTGTCAGGGGCATCCGATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATGCGTTGCATCTACAATCTGTGCATCCGGATTTCCGACTTCAATCTCAGTTATATGAGTCGGAAACGCTGCGTCAg                                                                                                                                            >  2:256209/1‑149 (MQ=255)        cgaTTGTCAGGGGCATCCGATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGc                                                                                                                                           <  1:42599/149‑1 (MQ=255)                aGGGGCATCCGATGTGGTTTGAGAAAATCGATCGCTCACCCTCGGGGCCTGGCGCGCAAAAGTATCCGTTGCATCTGCAAACTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACg                                                                                                                                   <  1:412943/149‑1 (MQ=255)                          gATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTa                                                                                                                         >  1:244560/1‑149 (MQ=255)                           aTGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTaa                                                                                                                        <  1:397625/149‑1 (MQ=255)                                      gaAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTAt                                                                                                             >  2:451911/1‑149 (MQ=255)                                       aaaaTCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTAtt                                                                                                            >  1:213379/1‑149 (MQ=255)                                              aaCGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAAc                                                                                                                                                      >  1:136954/1‑100 (MQ=255)                                              aaCGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAAc                                                                                                                                                      <  2:136954/100‑1 (MQ=255)                                              aaCGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGAATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGACCCAGTATTCCTTAAc                                                                                                     >  2:390388/1‑149 (MQ=255)                                                  cTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGc                                                                                                 >  1:687938/1‑149 (MQ=255)                                                   tCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGAATTACAGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGCCAGCAATATCCGGTAGCGGGTAAAGAGCCAGCATTCACTAACCcaca                                                                                                >  2:481012/1‑149 (MQ=255)                                                           tGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCa                                                                                        <  2:430765/149‑1 (MQ=255)                                                                 tGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTTTGCATCCGGATTTCCGACTTCATTCGCAGTTATGCGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCACGATGCCAgcgcgc                                                                                  <  1:742874/149‑1 (MQ=255)                                                                                 tcGTTGCATCTGCAATCTGTGCATCCGGGTTTCCGACTTCAATCGCAGGTATGGGAGTCGGAAACGCGGCGTCAGCAATATACGGTAGCGGGTAAAGCGACAGTATTCATTAACCCGCCGGATGCCAGCGCGCGAGGTATTCTTAACgg                                                                  <  2:409092/148‑1 (MQ=255)                                                                                         tCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAGTATACGGTAGCGGGTGAAGAGCCCGTATTCATTAACCCGCACGAAGCCAGCGCGCGCGGTATTCGTAACGGTGATGTgg                                                          >  1:698185/1‑149 (MQ=255)                                                                                           tGCAATCTGTGCATCCGGATTTCCGACTGCAGTCGCAGTTATGTGAGGCGGAAACGCTGCGGCAGCAATGTACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGCATGCCAACAGACAGGGTGTTCGTAACGGTGAAGTggga                                                        >  1:299371/1‑147 (MQ=255)                                                                                                     gCATCCCGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTa                                              <  1:31134/149‑1 (MQ=255)                                                                                                      cATCCGGATTTCCGCCTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTaa                                             <  1:232880/149‑1 (MQ=255)                                                                                                       aTCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTAtt                                                                          >  1:154332/1‑119 (MQ=255)                                                                                                       aTCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTAtt                                                                          <  2:154332/119‑1 (MQ=255)                                                                                                       aTCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAAc                                            >  1:551583/1‑149 (MQ=255)                                                                                                         ccGGATTTCCGACTTCACTCGCGGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAACGAGCCAGTATTCATTAACGCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACga                                          >  1:330182/1‑148 (MQ=255)                                                                                                                  cGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCTGTCa                                 >  1:607245/1‑149 (MQ=255)                                                                                                                      ttCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTACTGATTAACCCGCAGGAAGCCAGCGAGCGCGGTATTCGTAACGGTGATGTGGTACGCGCCTTTAACGCTCGCGGTCAGgtg                             >  1:697591/1‑149 (MQ=255)                                                                                                                      ttCACTCGCAGTTATATGAGTCGGAAACGCTGCGTCACCAATAGGTTATATAAGGTAAAGAGAGCGTAATCACTAATCCGCAGAATGCCAGCGCACGCGGTATTCGTACCGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCGGgtg                             >  2:363470/1‑149 (MQ=255)                                                                                                                           tCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTCACGGTGATGTGGTACGCGCCTTTAACGCTCGCGGTCCgggcttgcc                        >  2:315713/1‑142 (MQ=255)                                                                                                                               aGTTATGTGAGTCTGAAACGCTGCTTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCCTTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTTGGCAggg                    <  1:256209/149‑1 (MQ=255)                                                                                                                               aGTTATGTGAGGCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTTGGCAggg                    <  2:244560/149‑1 (MQ=255)                                                                                                                                gTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGTGGTCCGGTGTTGGCAgggg                   >  2:31153/1‑149 (MQ=255)                                                                                                                                      tgAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTTGGCAGGGGCAGTgg             <  1:288960/149‑1 (MQ=255)                                                                                                                                        agacGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTTGGCAGGGGCAGTGGtt           <  2:720554/146‑1 (MQ=255)                                                                                                                                           ccgAAACGCTGCGTCAGCCTCCGACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTTGGCAGGGGCAGTGGTTTCt        <  1:374717/147‑1 (MQ=255)                                                                                                                                            ggACACTCTGCGTCAGCAATACACGGGAGCGGGTAAAGAGCCGGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTTGGCAGGGGCAGTGGTTTCTg       <  2:98759/149‑1 (MQ=255)                                                                                                                                                 cGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTCGGCAGGGGCAGTGGTTTCTGACCGc  >  2:610305/1‑149 (MQ=255)                                                                                                                                                 |                                                                                                                                                     ACTACGACGATTGTCAGGGGCATCCGATGTGGTTTGAGAAAATCGAACGCTCCCACGGTGGGCCTGGCTCGCAAAAGTATCCGTTGCATCTGCAATCTGTGCATCCGGATTTCCGACTTCACTCGCAGTTATGTGAGTCGGAAACGCTGCGTCAGCAATATACGGTAGCGGGTAAAGAGCCAGTATTCATTAACCCGCAGGATGCCAGCGCGCGCGGTATTCGTAACGGTGATGTGGTACGCGTCTTTAACGCTCGCGGTCAGGTGTTGGCAGGGGCAGTGGTTTCTGACCGC  >  NC_000913_3_vch_tpiA/1061240‑1061532

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.