New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	4542682 =	18 (0.120)	3 (0.020)	3/512	NT	5.7%	intergenic (+49/‑433)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)
	?	NC_000913	4542996 =	82 (0.560)					intergenic (+363/‑119)	fimE/fimA	tyrosine recombinase/inversion of on/off regulator of fimA/major type 1 subunit fimbrin (pilin)

TCGCATTATTCGCGATGCCGGTATTGAAGCTGGAACCGTAACGCAGACTCATCCTCATATGTTAAGGCATGCTTGCGGTTATGAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCC  >  NC_000913/4542387‑4542860                                                                                                                                                                                                                                                                                                        |                                                                                                                                                                                   tggccgaactgaacggtgtgatcaacagagcctgcatcaacggcgcaagctgcgttaacaacttcccctttacagtgaacgggcccaccattaaccgtcgtggcagcggccagagccgctgtagaactgagggacagagccgacagaacaacgattgccagagttttaattgtcatgctgctttcctttcaaaaaactatttctaaagcgacatgggcagtcgttctggacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTgggg                                                                                                                                                                               >  2:159620‑M1/296‑301 (MQ=255)  gtcctaactgaacggtttgatcaacagagcctgcatcaactgcgcaagcggcgttaacaacttcccctttaaagtgaacggtcccaccattaaccgtcgtggcagcggccagagccgctgtagcactgagggacagagccgacagaacaacgattgccagcgttttaattttcatgctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaactagtttgacggccaccacttcacagttttcccccaaaatatgaacaatTtgggt                                                                                                                                                                               <  1:912421‑M1/6‑2 (MQ=255)  cGCATTATTCGCGATGCCGGTATTGAAGCTGGAACCGTAACGCAGACTCATCCTCATATGTTAAGGCATGCTTGCGGTTATGAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTAAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTTTACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGACGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAAAAAATAAATAAAAGACAATTgggg                                                                                                                                                                               >  2:1469450/1‑300 (MQ=255)       tattCGCGATGCCGGTATTGAAGCTGGAACCTTAACGCAGACTCATCCTCATATGTTAAGGCATGCTTGCGGTTATGAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAAc                                                                                                                                                                         <  2:1030758/301‑1 (MQ=255)            aacggttggcgcaaaagagccggcattaactgagaaagcggatgtaacaacttcaccttgaaagtgaacggtgccactattaaccggcggggcagcggccagagccgctgtagaacttagggacagagccgaaagaacaacgatggccagagtttgaattttcatgctgctttcctttaaaaaaactatttctcaatcgacatgggcagtcgttcggtacacttggttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTcc                                                                                                                                                                    >  2:888701‑M1/285‑301 (MQ=255)                  tcGGTATTGATGCTGGAACCGTAACGCAGACTCATCCTCATATGTTGAGGCATGCTTGCGGTTATGAATTGGCGGCGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCTGTCATCGAAATATTCGCCATACTGTGCGTTATACCGCCACTAATGCTGCTCGTTTTGCCGGATTATGTGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATc                                                                                                                                                               <  2:1156023/299‑1 (MQ=255)                  ccGGTATTGAAGCTGGACCCGTAACGCAGACTTAGCCTCATATGTTAAGTCTTGCTTGCGGTTATTAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATc                                                                                                                                                               <  1:880050/300‑1 (MQ=255)                             ggtGGAACCGTAACGCAGACTAATCCTCATATGTTAAGGCATGCTTGCGGTTATGAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATc                                                                                                                                                               <  2:144320/287‑1 (MQ=255)                             gCTGGAACCGTAACGCAGACTCATCCTCATATGTTAAGGCATGCTTGCGGTTATGAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGAAAATTGGGGCCAAACTGTCCATATCatttctcttata                                                                                                                                                   >  1:144316/1‑291 (MQ=255)                                                     cctctgatGTTAAGGCATGCTTTCGGTTATGAATTTGCGGAGGGTGGTGCAGATACTCGTTTAATTTAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAACCAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATaaaaa                                                                                                                           <  1:1469406/295‑1 (MQ=255)                                                                   cctttaaagtgaacggtcccaccattaaccgtcgtggcagcggccagagccgctgtagaactgagggacagagccgacagaacaacgattgccagagttttaattttcatgctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGc                                                                                                                                                                              <  2:89787‑M1/7‑1 (MQ=255)                                                                   cctttaaagtgaacggtcccaccatgaaccgtcgtggcagcggccagagccgctgtagaactgagggacagagccgacagaacaacgattgccagagttttaattttcatgctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGc                                                                                                                                                                              >  1:89783‑M1/230‑236 (MQ=255)                                                                           gtgaacggtcccaccattaaccgtcgtggcagcggccagagccgctgtagaactgagggacagagccgacagaacaacgattgccagagttttaattttcatgctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGc                                                                                                                                                                              <  2:1004644‑M1/7‑1 (MQ=255)                                                                           gtgaacggtcccacaattaaccgtcgtggcagcggccagagccgctgtagaactgagggacagagccgacagaacaacgattgccagagttttaattttcatgctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGc                                                                                                                                                                              >  1:1004616‑M1/222‑228 (MQ=255)                                                                                                                                                      aTACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTg                                                                                         <  2:236664/238‑1 (MQ=255)                                                                                                                                                             gCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCataaata                                                                                                                                                        <  1:10044/168‑1 (MQ=255)                                                                                                                                                             gCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCataaata                                                                                                                                                        >  2:10044/1‑168 (MQ=255)                                                                                                                                                             gCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATTTAAATTATTTCTATTTTAAATTACTTTCACAACCCCTCCGCTATATGTAAATATAACtttt                       >  1:802105/1‑297 (MQ=255)                                                                                                                                                                 gagttttaattttcatgctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGc                                           <  2:1427430‑M1/138‑1 (MQ=255)                                                                                                                                                                 gagttttaattttcatgctgctttcctttcaaaaaactatttctaaatcgacatgggcagtcgttctgtacactttgttttgtaaacgagtttgactgccaacactgcacagttttcccccaaaagatgaaacatTTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGc                                           >  1:1427389‑M1/136‑273 (MQ=255)                                                                                                                                                                              aTGCTGCTCGTTTTGCCGGATTAAGGGAAAGAAATAATCTAAGAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAAATGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTcc  <  2:802115/301‑1 (MQ=255)                                                                                                                                                                                                                                  aTTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAAc                                                                                                                                                                         <  1:802493/82‑1 (MQ=255)                                                                                                                                                                                                                                  aTTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCAAAAc                                                                                                                                                                         >  2:802503/1‑82 (MQ=255)                                                                                                                                                                                                                                                                aTTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTatat                                      <  1:1110741/183‑1 (MQ=255)                                                                                                                                                                                                                                                                aTTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTACTATTGTAAATTAATTTCACATCACCTCCGCTatat                                      >  2:1110771/1‑183 (MQ=255)                                                                                                                                                                                                                                                                    ataataAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAAc                                                                                                                                                                         >  1:780151/1‑48 (MQ=255)                                                                                                                                                                                                                                                                    ataataAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAAc                                                                                                                                                                         <  2:780160/48‑1 (MQ=255)                                                                                                                                                                                                                                                                                                        |                                                                                                                                                                                   TCGCATTATTCGCGATGCCGGTATTGAAGCTGGAACCGTAACGCAGACTCATCCTCATATGTTAAGGCATGCTTGCGGTTATGAATTGGCGGAGCGTGGTGCAGATACTCGTTTAATTCAGGATTATCTCGGGCATCGAAATATTCGCCATACTGTGCGTTATACCGCCAGTAATGCTGCTCGTTTTGCCGGATTATGGGAAAGAAATAATCTCATAAACGAAAAATTAAAAAGAGAAGAGGTTTGATTTAACTTATTGATAATAAAGTTAAAAAAACAAATAAATACAAGACAATTGGGGCCAAACTGTCCATATCATAAATAAGTTACGTATTTTTTCTCAAGCATAAAAATATTAAAAAACGACAAAAAGCATCTAACTGTTTGATATGTAAATTATTTCTATTGTAAATTAATTTCACATCACCTCCGCTATATGTAAAGCTAACGTTTCTGTGGCTCGACGCATCTTCC  >  NC_000913/4542387‑4542860

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.