New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913_3_vch_tpiA	= 4542720	28 (0.870)	8 (0.260)	8/264	2.6	24.5%	noncoding (4542720/4641682 nt)	repeat_region	repeat region
	?	NC_000913_3_vch_tpiA	= 4543016	23 (0.760)					noncoding (4543016/4641682 nt)	repeat_region	repeat region

TACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAAC  >  NC_000913_3_vch_tpiA/4542579‑4542865                                                                                                                                               |                                                                                                                                                  taCCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTc                                                                                                                                            <  1:337343/149‑1 (MQ=255)      ccAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAAGAAATAAATACAAGAC‑AGTTGGGGCCATACTGTCCattt                                                                                                                                       >  2:122366/1‑147 (MQ=255)          tAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAAATTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAttttgactcatagagg                                                                                                                                   >  1:173919‑M1/1‑133 (MQ=255)             tggtgctAGTTTTGCCGGATTACTGGAAAGAAAGAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGATAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCataaat                                                                                                                                <  2:375532/146‑1 (MQ=255)              gctgctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCataaata                                                                                                                               >  1:22969/1‑149 (MQ=255)              gctgccCGTTTTCCCGGATTAGAGGAAAGAAAAAATCTCATAAACTAAAAATTAAAAAGAGAAGAGGTCTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCTAAACTTGCCATATCataaata                                                                                                                               <  2:355355/149‑1 (MQ=255)                 gctCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGATTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAttttgactcagagaggcaggcat                                                                                                                            >  2:388371‑M1/1‑126 (MQ=255)                          gCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAAAGGTTTGATTTAACTTATTGATAATAAAATTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTATCCATATCATAAATATGTTACGTAttt                                                                                                                   >  1:43659/1‑149 (MQ=255)                              gaatATGGGAAAGAAATAATCTCAAAAACTAAAAATTAAAAAAAGTAGCTGTTTGACTTAACTTATTAATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTtc                                                                                                               <  1:122366/146‑1 (MQ=255)                                    gggAAAGAAATGATCTCAAATAGGAAAAATTTACAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGc                                                                                                         <  2:37372/149‑1 (MQ=255)                                     ggAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAAGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCa                                                                                                        >  1:569772/1‑149 (MQ=255)                                      gaaagaaaTAACCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATAAAAGAC‑AATTAGGGCCAAACTGTCCATATCATAAAAAAGTTAAGTATTTTTTCTCaatgat                                                                                                       >  1:68917/1‑145 (MQ=255)                                          gaaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATaaaa                                                                                                   <  1:6793/149‑1 (MQ=255)                                           aaaTAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTTTCAAGCTTaaaaa                                                                                                  >  1:576656/1‑149 (MQ=255)                                                   tcATAAACGAAAAATTAAAAAGTGCAGAGGTTTGATTTAACTTATTGAAAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATCAATAAGTTACTTATTTTTTCTCAAGCATAAAAATATTaaaa                                                                                          >  1:11397/1‑149 (MQ=255)                                                                    aaaaGAGAAGATGTTTAATTTAACTTATTGATAATAAAGTTAAAAAATTCAATATATACAAGTC‑AATTGGGGACAAACTGTCCATATTATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCt                                                                         <  1:100842/149‑1 (MQ=255)                                                                            agagGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGttt                                                                 <  1:222059/149‑1 (MQ=255)                                                                            agaaGTTTGATTTAATATATTTAAAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGttt                                                                 <  2:22969/149‑1 (MQ=255)                                                                                 tttGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAttttaactcatagaggaaagcatcgcggacaaactttttaagttaatttgttggcttaatattctattgttatgtttattgattcat                                                            >  1:480723‑M1/1‑62 (MQ=255)                                                                                         aaCTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAatta                                                    >  1:454857/1‑149 (MQ=255)                                                                                              aTTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAttttgactcatagaggaaagcatcgctgacaaacttttttagtttattttttggcttaatattctattgttatctttatttatagatgtttatattgcat                                               <  1:256138‑M1/149‑101 (MQ=255)                                                                                               ttGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACAACACAAAGCATCTAACTGTTTGATATGTGAATTATTTCTa                                              >  2:318202/1‑149 (MQ=255)                                                                                                  aaaagaaaGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGACAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAATTGTTTGATATGTAAATTATTTCTATTg                                           <  2:177125/144‑1 (MQ=255)                                                                                                    aataaAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatgtttatatttcattatttg                                         >  2:444329‑M1/1‑43 (MQ=255)                                                                                                      taaAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAAATGTACATATAATAAATAATTAACTTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAAGTATTTCTATTGTaaa                                       >  1:211119/1‑149 (MQ=255)                                                                                                             aaaaaaaCAAATAAATACAAGAC‑AATTGCGGCCAttttgacttatagaggaaagcatcgcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggtttttgga                                <  1:444329‑M1/149‑116 (MQ=255)                                                                                                              aaaaaaCAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGATAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTc                               <  1:504678/149‑1 (MQ=255)                                                                                                                  aaCAAATAAATA‑TAGACGTATTGGGGCCAttttgaataatagagaaaagcatctcggacaaactttttcagtttatttgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggtttttggagagaa                           <  2:369489‑M1/149‑121 (MQ=255)                                                                                                                     aaataaatACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCAc                        >  2:75254/1‑149 (MQ=255)                                                                                                                     aaaaatatacaatac‑aAAGGGGGCCAAGCTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACAAAAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCAc                        <  1:95666/143‑1 (MQ=255)                                                                                                                       ataaataCAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCt                      >  2:103011/1‑149 (MQ=255)                                                                                                                           ataCAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACAACACCTCCGc                  >  2:212293/1‑149 (MQ=255)                                                                                                                                 gAC‑AATTGGGGCCAttttgactcatagaggaaagcatcgcggacaaacatttaaagtttatatgttggcttaatattctattgttatctttatttatagatgtttatattgcatgaggtggtttttggagagaagaatgaggaagatgc            >  1:22988‑M1/1‑14 (MQ=255)                                                                                                                                     aaTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAatta                                                    >  2:325997/1‑106 (MQ=255)                                                                                                                                     aaTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAatta                                                    <  1:325997/106‑1 (MQ=255)                                                                                                                                            gCCAttttgactcatagaggaaagcatcgcggacaaactttttttgtttttttgttggcttaatattctattgttatctttatttctagatgtttatattgcatgaggtggtttttgtatagtagactgaggaagatgtgtcgcgccac  >  2:11397‑M1/1‑4 (MQ=255)                                                                                                                                            gCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAAc  <  2:454857/149‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                  TACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAC‑AATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAAC  >  NC_000913_3_vch_tpiA/4542579‑4542865

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.