New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	845565 =	29 (1.160)	4 (0.170)	4/266	2.8	12.9%	noncoding (845565/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	845589 =	NA (NA)					noncoding (845589/4641682 nt)	repeat_region	repeat region
Rejected: Frequency below/above cutoff threshold.

GTATGGATACCGCGTGGGCAGGTGCGCCCAGCAGGCAGAAGAGGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGCCTTATCCGTCCTACAAGTTCATGCAATTTTAATAAGTTGCCAGATATCCTGTAGGCCTGAT  >  NC_000913_3_vch_tpiA/845417‑845711                                                                                                                                                     |                                                                                                                                                   gTATGGATACCGCGTGGGCAGGTGCGCCCAGCAGGCAGAAGAGGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGc                                                                                                                                                    <  1:351736/149‑1 (MQ=255)     attgcctgatgcgctacgcttatcaggcctacaggatatctggcaacttattaaaattgcatggacttgtaggacggataaggcgttcacgccgcatccggcaaaaaagcccgcacgttgtcagcaacctgcttaatatcccttcctcc                                                                                                                                                <  2:141967‑M1/5‑1 (MQ=255)           cgcgTGGGGAGGGGCGGCCAGCAGGCAGAAGAGGATGAACAGGATCCACCGGAGGATTCCACCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCg                                                                                                                                          <  2:267545/149‑1 (MQ=255)             cgTGGGCAGGTGCGCCCAGCAGGCAGAAGAGGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCggg                                                                                                                                        <  1:70055/149‑1 (MQ=255)                           cccAGCAGGCAGAAGAGGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAg                                                                                                                          >  2:238497/1‑149 (MQ=255)                            ccAGCAGGCAGAAGAGGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGGAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAgg                                                                                                                         >  2:63784/1‑149 (MQ=255)                                caggcagAAGAGGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGGAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGata                                                                                                                     <  1:63784/149‑1 (MQ=255)                                 aggcagAAGAGGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGagat                                                                                                                    >  1:285105/1‑149 (MQ=255)                                    gagaagaGGATGAAAAGGACCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCACCTGTTATTTAGAGGAGTCTGGTGTGCCTCCCTTTCGGGTGAAAGGTAGGAAGGGATATTaa                                                                                                                 <  1:213464/148‑1 (MQ=255)                                         gagGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAgg                                                                                                            >  2:390303/1‑149 (MQ=255)                                         gagGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAgg                                                                                                            <  1:238497/149‑1 (MQ=255)                                           ggATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGtt                                                                                                          >  1:385781/1‑149 (MQ=255)                                            gATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGgga                                                                                                                               <  1:171834/127‑1 (MQ=255)                                            gATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGgga                                                                                                                               >  2:171834/1‑127 (MQ=255)                                            gATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTaa                                                                                                                 <  1:319026/141‑1 (MQ=255)                                            gATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTaa                                                                                                                 >  2:319026/1‑141 (MQ=255)                                                                    tcctccAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTAGGGCGACAGGGGGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGc                                                                                 <  2:402590/149‑1 (MQ=255)                                                                      ctccAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCCGGTTGCTGACAACGTGCGGGCTTTTTTGCCg                                                                               >  2:76303/1‑149 (MQ=255)                                                                      ctccAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCg                                                                               >  1:316224/1‑149 (MQ=255)                                                                          aGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATg                                                                           >  1:304086/1‑149 (MQ=255)                                                                             gagaAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATgcgg                                                                        >  2:296045/1‑149 (MQ=255)                                                                                       agCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGcc                                                              <  1:179274/149‑1 (MQ=255)                                                                                          aaaaaGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGCCTTa                                                           >  1:28699/1‑149 (MQ=255)                                                                                             aaGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTTGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGCCTTATcc                                                        <  1:350004/149‑1 (MQ=255)                                                                                                aTAAGTATAGATGCTGGAGGAGTGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGc                                                               <  1:162167/139‑1 (MQ=255)                                                                                                aTAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGc                                                               >  2:162167/1‑139 (MQ=255)                                                                                                        aGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGc                                                               >  1:341224/1‑131 (MQ=255)                                                                                                        aGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGc                                                               <  2:341224/131‑1 (MQ=255)                                                                                                                   ccgcacgttgtcagcaacctgcttaatatcccttCCTCCCTTTCGGGTGAAAGgga                                                                                                                               <  2:310062‑M1/22‑1 (MQ=255)                                                                                                                   ccgcacgttgtcagcaacctgcttaatatcccttCCTCCCTTTCGGGTGAAAGgga                                                                                                                               >  1:310062‑M1/35‑56 (MQ=255)                                                                                                                                      gagTAATCTGGTGAGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGCCTTATCCGTCCTACAAGTTCATGCAATTTTAATAAGTTGCCAGATATc               <  1:98364/149‑1 (MQ=255)                                                                                                                                           aatatcccttCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATAtt                                                                                                                   <  1:19197‑M1/34‑1 (MQ=255)                                                                                                                                           aatatcccttCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATAtt                                                                                                                   >  2:19197‑M1/11‑44 (MQ=255)                                                                                                                                                   tgCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGTATGCGGCGTGAACACCTTATCCGTCCTACACGTTCATGCAATTTTAATACCTCTCCCGATATCCTGTAGCCCTGAt  >  2:130464/1‑149 (MQ=255)                                                                                                                                                     CCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCg                                                                               >  1:172809‑M1/1‑70 (MQ=255)                                                                                                                                                     CCTCCCTTTCGGGGGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCg                                                                               <  2:172809‑M1/70‑1 (MQ=255)                                                                                                                                                     |                                                                                                                                                   GTATGGATACCGCGTGGGCAGGTGCGCCCAGCAGGCAGAAGAGGATGAACAGGATCCACCGCATGACTCCTCCAGTGAGAAAATAGAGCAAAAAGATAAGTATAGATGCTGGAGGAGGGGCGATTTTAAATGAGAGGAATCTGGTGTGCCTCCCTTTCGGGTGAAAGGGAGGAAGGGATATTAAGCAGGTTGCTGACAACGTGCGGGCTTTTTTGCCGGATGCGGCGTGAACGCCTTATCCGTCCTACAAGTTCATGCAATTTTAATAAGTTGCCAGATATCCTGTAGGCCTGAT  >  NC_000913_3_vch_tpiA/845417‑845711

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.