New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 1391495	NA (NA)	9 (0.510)	8/276	NT	52.9%	intergenic (+146/‑127)	insH1/ynaJ	IS5 transposase and trans‑activator/DUF2534 family putative inner membrane protein
	?	CP009273	= 1972751	8 (0.450)					intergenic (‑297/‑483)	flhD/uspC	flagellar class II regulon transcriptional activator, with FlhC/universal stress protein

TACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTG  >  CP009273/1972605‑1972898                                                                                                                                                   |                                                                                                                                                    tACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACa                                                                                                                                                   <  2:247518/149‑1 (MQ=255)                gTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCCCTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTCACATAAATGTATAAGTCa                                                                                                                                    >  2:33230/1‑149 (MQ=255)                          ttATCTAAGAGTTTTCCTAGATCGACGCAACTGTACTCGTCACTACACGCACCTACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaataagcggggaaattc                                                                                                                          >  1:151523‑M2/1‑122 (MQ=255)                                  ggcttttcctAATTCGGCGCATCTGTACTCGTCACTACACGCACATTCCGCGGAGGGGGGCTGCGATTTGCAATAATGCGTGATGCAGATCACACAAAACTCGCAATTACTTATggaaggtgcgaataagcggggaaattcttctcggc                                                                                                                  >  1:147551‑M2/4‑114 (MQ=255)                                  gATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATCCAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaataagcggggaaattcttctcggc                                                                                                                  >  1:110832‑M2/1‑114 (MQ=255)                                   aTTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTa                                                                                                                 >  2:3124/1‑149 (MQ=255)                                           tAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGAGTTTCAATAATGCGTGATGCAGATCACACAAAACCCTCAATTACTTAAggaaggtgcgaataagcgaggagatccttctcggctgactcagg                                                                                                         <  1:78596‑M2/149‑45 (MQ=255)                                                     gcgaaggtaagttgatgactcatgatgaaccctgttctatggctccagatgacaaacatgatctcatatcagggacttgttcgcaccttccTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCCATCTGTTAAAAAg                                                                                               <  1:162075‑M1/58‑1 (MQ=255)                                                                 tgatgactcatgatgaaccctgttctatggctccagatgacaaacatgatctcatatcagggacttgttcgcaccttccTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTtgctacg                                                                                   <  1:201954‑M1/70‑1 (MQ=255)                                                                 tgatgactcatgatgaaccctgttctatggctccagatgacaaacatgatctcatatcagggacttgttcgcaccttccTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTcgctacg                                                                                   <  1:202018‑M1/70‑1 (MQ=255)                                                                               tACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCaaaaa                                                                     <  1:43844/149‑1 (MQ=255)                                                                                  aaCGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGa                                                                  >  2:88250/1‑149 (MQ=255)                                                                                   aCGGAGGGGGGCTGTGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgt                                                                 >  2:117966‑M2/1‑65 (MQ=255)                                                                                      gAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTCCTTAACATAAATGTATAAGTCATACTTTTTTTTTGGGTGTATTTCAATCTGTCAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACa                                                              <  2:62784/149‑1 (MQ=255)                                                                                      gAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACa                                                              >  2:210678/1‑149 (MQ=255)                                                                                                  gATTTTCAATCATGCGGGATGCAGATCACACAACACTCTCAATTACTTAAggaaggtgcgaatcagcggggaaattattctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatca                                                  >  1:254791‑M2/1‑50 (MQ=255)                                                                                                    ttttCAATAATGCGTGATGCAGATCACACAAAACACTAACTTACTCAAggaaggtgcgaataggcggggaaattcttctcggctgacgcagtcatctcatttcttcatgtttgagccgcttctttctcccgtcaatgccttgaatcagc                                                <  1:2941‑M2/149‑102 (MQ=255)                                                                                                                            cacacaAAACTTCCAATTACTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttctttatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttagaccgtttcttcgccat                        >  2:78596‑M2/1‑24 (MQ=255)                                                                                                                                 aaaaCACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTGTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCGAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCa                   <  1:33230/149‑1 (MQ=255)                                                                                                                                  aaaCACTCAATTACTTAAggaaggtgcgaataagcggggaaattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgtaaatgccttgaatcagcctatttaggccgtttcttcgccgtttaagg                  <  1:25360‑M2/149‑132 (MQ=255)                                                                                                                                  aaaCACTCAACAGCCTAATATGAAGGTATAACGTATACTTTCGTTTTGCGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTAAAAAAAAAAAAAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCAc                  <  1:153206/149‑1 (MQ=255)                                                                                                                                    ttcgcaccttccTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAGGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATTTTGCGCAAAGTCAAAAAAAATCACCg                <  2:42933‑M1/137‑1 (MQ=255)                                                                                                                                    ttcgcaccttccTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAGCTCACCg                <  2:42946‑M1/137‑1 (MQ=255)                                                                                                                                     tcggaccttccTTAACATAAATGTATAAGACATACTTTAGTTTTGGGTGTATTTTAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAACTGGATGTTGCGCACAGTCAAATTAACtcacagt               <  1:263321‑M1/138‑4 (MQ=255)                                                                                                                                              acgtcaggaaggtgcgcataagcggggacattcttctcggctgactcagtcatttcatttcttcatgtttgagccgattttttctcccgttaatgccttgaatcagcctatttagaccgtttcttcgccatttaaggcgttatccccag      >  2:128840‑M2/6‑6 (MQ=255)                                                                                                                                                  aaCATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTg  <  1:19000/149‑1 (MQ=255)                                                                                                                                                   |                                                                                                                                                    TACAAATAGAAATGGGTCTTTACACTTATCTAAGATTTTTCCTAAATCGACGCAACTGTACTCGTCACTACACGCACATACAACGGAGGGGGGCTGCGATTTTCAATAATGCGTGATGCAGATCACACAAAACACTCAATTACTTAACATAAATGTATAAGTCATACTTTTGTTTTGGGTGTATTTCAATCTGTTAAAAAGTTTTTCGCTACGCTAGCAAGCAAAAATGAAACAGGAATAATCGAAATGGGATGTTGCGCACAGTCAAAATAACTCACCGTAAATAATCATCTG  >  CP009273/1972605‑1972898

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.