New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 1692236	14 (0.810)	3 (0.180)	3/290	NT	17.0%	coding (62/768 nt)	hdhA	7‑alpha‑hydroxysteroid dehydrogenase, NAD‑dependent
	?	CP009273	= 1692384	16 (0.970)					intergenic (‑87/+25)	hdhA/malI	7‑alpha‑hydroxysteroid dehydrogenase, NAD‑dependent/transcriptional repressor of Mal regulon

AATTTCGTCTACAACATGGTTAGCTGCGTCGGCGTTAATATCACTGACCACCACAGATGCGCCAGCTGTCGCGAATGTAATGGCGATTTCTTTACCAATACCTGCACCCGCACCTGTGATGATGGCGCATTTTCCGTCGAGTCTCAGGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTCCCGCGCTGGCGTGCTGGCCCAGGTAACAGGTATATCATCAAGTGTGGTTGGTGTCGCATCGGTAAATGCCGCCAGCGAAACCTGTTGCTCAAA  >  CP009273/1692133‑1692606                                                                                                                                                                                                                                                            |                                                                                                                                                                                                                               aaTTTCGTCTACAACATGGTTAGCTGCGTCGGCGTTAATATCACTGACCACCACAGATGCGCCAGCTGTCGCGAATGTAATGGCGATTTCTTTACCAATACCTGCACCCGCACCTGTGATGATGGCGCATTTTCCGTCGAGTCTCAGGTAGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAagagag                                                                                                                                                                                                          <  2:327031/274‑1 (MQ=255)   tttCGTCTACAACATGGTTAGCTGCGTCGGCGTTAATATCACTGACCACCACAGATGCGCCAGCTGTCGCGAATGTAATGGCGATTTCTTTACCAATACCTGCCCCCGCACCTGTGATGATGGCGCATTTTCCGTCGAGTCTCAGGTTGTCAGACTTAAACACATAACCCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAACGGACCCCACCAGGTATAGCATCTaaaatgatttt                                                                                                                                                                                                       >  2:283500/1‑267 (MQ=255)                                                   ccacAGATGCGCCAGCTGTCGCGAATGTAATGGCGATTTCTTTACCAATACCTGCACCCGCACCTGTGATGATGGCGCATTTTCCGTCGAGTCTCAGGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACc                                                                                                                                                                                                                               >  1:12553‑M2/1‑202 (MQ=255)                                                                            tGTAATGGCGATTTCTTTACCAATACCTGCACCCGCACCTGTGATGATGGCGCATTTTCCGTCGAGTCTCAGGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATNAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGAtttttt                                                                                                                                 <  1:283511/272‑1 (MQ=255)                                                                                                     ccTGCACCCGCACCTGTGATGATGGCGCATTTTCCGTCGAGTCTCAGGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATGATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATAcc                                                                                                     >  1:190483/1‑275 (MQ=255)                                                                                                                   tgtgATGATGGCGCATTTTCCGTCGAGTCTCAGGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACcaggtattggtaaagaaatcgccattacattcgcgacagctggagcatctgtggtggtcagtgatattaacgccgaagcagctaaccatgttttagacgaaattcaacaactggggggtaaggcattgccttgccgt                                                                                       <  2:143379‑M2/275‑138 (MQ=255)                                                                                                                          atgGCGCATTTTCCGTCGAGTCTCAGGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCcggg                                                                                                                                                                                 >  2:33476/1‑178 (MQ=255)                                                                                                                              cgcATTTTCCGTCGAGTCTCAGGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCcgggcggg                                                                                                                                                                             <  1:33476/178‑1 (MQ=255)                                                                                                                                          cGAGTCTCATGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTGTTATCANTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTCCCGCGCTGGCGTGCTGGCCCAGGTAACAGGt                                                                <  1:249922/275‑1 (MQ=255)                                                                                                                                                   ggTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTCCCGCGCTGGCGTGCTGGCCCAGGTAACAGGTATaacataa                                                       >  1:40930/1‑273 (MQ=255)                                                                                                                                                             ttaaaccccttAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCCCCGCCTGTGTGCCAAATTTTTTATCATTAACCTTGAGTAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTCCCGCGCTGGCGTGCTGGCCCAGGTAACAGGTATATCATCAAGTGtggt                                               <  2:40930/263‑1 (MQ=255)                                                                                                                                                              ttAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACcaggtattggtaaagaaatcgccattacattcgcgacagctggcgcatctgtggtggtcagtgatattaacgccgacgcagctaccatgttgtagacgaaattc                                                                                                                        <  1:38389‑M2/199‑105 (MQ=255)                                                                                                                                                                 aaCACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTcc                                                                                              >  2:80286/1‑222 (MQ=255)                                                                                                                                                                  acacATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACcaggtattggtaaagaaatcgccattacattcgcgacagctggcgcatctgtggtggtcagtgatattaacgccgacgcagctaccatgttgtagacgaaattcaaca                                                                                                                    >  2:38389‑M2/1‑91 (MQ=255)                                                                                                                                                                     caTAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTCCcgcg                                                                                          <  1:80288/222‑1 (MQ=255)                                                                                                                                                                      aTAAACCTCCCGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCGGCAAGTGTGATACCAAGTTCCCGCGCTGGCGTGCTGGCCCAg                                                                         >  1:333291/1‑238 (MQ=255)                                                                                                                                                                          aactcctTTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTCCCGCGCTGGCGTGCTGGCCCAGGTaa                                                                     <  2:333279/236‑1 (MQ=255)                                                                                                                                                                               ctGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGattat                                                                                                                                                                                                    >  1:58149/1‑106 (MQ=255)                                                                                                                                                                                   gAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCg                                                                                                                                                                                                <  2:58147/106‑1 (MQ=255)                                                                                                                                                                                                 aTAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACcaggt                                                                                                                                                                                                                           <  1:109590‑M2/65‑6 (MQ=255)                                                                                                                                                                                                          aCCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTCCCGCGCTGGAGTGCTGGCCCCGGTAACAGGTATATCCTCACGTGTTTTTGTTGTCGCATCGGTAAATGCCNCCATCTAAAcccttttccccca  >  2:194912/1‑262 (MQ=255)                                                                                                                                                                                                                                                            |                                                                                                                                                                                                                               AATTTCGTCTACAACATGGTTAGCTGCGTCGGCGTTAATATCACTGACCACCACAGATGCGCCAGCTGTCGCGAATGTAATGGCGATTTCTTTACCAATACCTGCACCCGCACCTGTGATGATGGCGCATTTTCCGTCGAGTCTCAGGTTGTCAGAATTAAACACATAAACCTCCTGTGAACTTCAGTAAAAATAAAAGGCACCGCCTGTGTGCCACATTTTTTATCATTAACCTTGAGGAAAGGACACTACCAGGTATAGCAGATAAAGAGAGGATTATTTCGCTGCAATGAGCCGGGCGGGAATAATAAGATTGCGTGAATGCGTCTCTTCATGGGTGATTTTTTGCATCATGCGATCCGCAAGTGTGATACCAAGTTCCCGCGCTGGCGTGCTGGCCCAGGTAACAGGTATATCATCAAGTGTGGTTGGTGTCGCATCGGTAAATGCCGCCAGCGAAACCTGTTGCTCAAA  >  CP009273/1692133‑1692606

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 23 ≤ ATCG/ATCG < 35 ≤ 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.