New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 1391495	NA (NA)	48 (1.030)	36/290	0.3	96.0%	intergenic (+146/‑127)	insH1/ynaJ	IS5 transposase and trans‑activator/DUF2534 family putative inner membrane protein
	?	CP009273	= 1972751	2 (0.040)					intergenic (‑297/‑483)	flhD/uspC	flagellar class II regulon transcriptional activator, with FlhC/universal stress protein

TGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGT  >  CP009273/1391354‑1391643                                                                                                                                              |                                                                                                                                                     tGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCGCCTTCCctaactc                                                                                                                                               >  1:236289/1‑148 (MQ=11)     gATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCa                                                                                                                                           >  1:11634/1‑149 (MQ=34)       tAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTGCGGGCGACAAAATCGGCTCAAACATGGAGAAATGAAACGACTGCGTCAGCCGCGAGGAATTTCCCCGCTTATTCGAACCTTCCcgaacta                                                                                                                                               >  2:248098/1‑143 (MQ=11)          cGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCCCCTTCCCTAACTAATc                                                                                                                                            >  2:246867/1‑143 (MQ=18)          cGCCTTAAATGGCGAAGAAACGGGCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTAAGCCGAGAAGAATTTCCCCGCTTATTCGGACCTTCCCTAACTAATc                                                                                                                                            >  2:478076/1‑143 (MQ=16)                    ggCGAAGAAACGGTCTAAATAGGCTGATTCAAAGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGCATTTCCCCGCTTATTCGCACCTTCCCTCACTAATCAATCCTTTGCTTCTac                                                                                                                            >  1:28753/1‑148 (MQ=11)                         agaaAAGGTCTAAATAGGCTGATTCAAGGCAGTTACGGGAGAAAAAATCGGCTCAAACATGAAGACAGGAAATTACTGAGTCAGGCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCGTAACTAATCAATGCGTTGATTGTa                                                                                                                             <  2:701097/143‑1 (MQ=14)                              cGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTaa                                                                                                                  >  1:562518/1‑149 (MQ=255)                                     aaTAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAATCAGCCGAGAAGAATTTCCCCGCTTGTTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCCGCTAag                                                                                                                 >  2:409892/1‑143 (MQ=255)                                            tGATGCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAgaggtgag                                                                                                          <  2:535561/143‑1 (MQ=255)                                              aTTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCag                                                                                                  <  1:180200/149‑1 (MQ=255)                                                tCAAGGCATTTCCGGGCGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACGGAGTCAGCCGAGAAGAATTTCCCCGCGTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGttt                                                                                                      <  2:486721/143‑1 (MQ=255)                                                    ggCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGa                                                                                            <  1:398367/149‑1 (MQ=255)                                                      cATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCagag                                                                                                <  2:58875/143‑1 (MQ=255)                                                       aTTTACAGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGc                                                                                               <  2:377694/143‑1 (MQ=255)                                                        tttACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCa                                                                                              <  2:411528/143‑1 (MQ=255)                                                        attACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGATTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCa                                                                                              <  2:379696/142‑1 (MQ=255)                                                          taagggAGAAAACATCGGCGCAAACATGAAGAAATGAAATGACTGAGTCAGCAGAGAATAATTTCCTCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCCAAGAGGTGAGCTTTTCAGAGCAGa                                                                                            <  2:307285/140‑1 (MQ=21)                                                             gggAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGCTTGCAGAGCAGACaa                                                                                         >  2:430072/1‑143 (MQ=255)                                                                  aaaaaaTCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGt                                                                              >  1:620199/1‑149 (MQ=255)                                                                        tCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGGGAAATGt                                                                              >  2:96357/1‑143 (MQ=255)                                                                             tCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGTTGAGGTTTTCAGAGCAGACAACGGTGAATTGGCATgg                                                                         >  2:82585/1‑143 (MQ=255)                                                                             tCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGATTTCAGAGCAGACAACGGTGAAATGTCATgg                                                                         >  2:272415/1‑143 (MQ=255)                                                                              cAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAAGGTCATGGt                                                                        >  2:354958/1‑143 (MQ=255)                                                                                 aCATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCACTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACg                                                               >  1:658373/1‑149 (MQ=255)                                                                                      aataacataaatgaCTGAGCNCNCCGNTAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGAGTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAATGGTGTAATGTCATGGTATTGTTACGTTTAg                                                          <  1:409084/141‑1 (MQ=37)                                                                                          aatgaaatgcCTGAGTCAGCCGGGAAGAATTTCCCCGCTTATTCGCATCTTCCCTAACTAATCAATGCGTTGATTGTAACTCGAGCTAAGAGGTGAGGTTTTCAGAGTAGACAACGGTGAAATGTCATGGTATTGTTATGttt                                                            <  2:631073/143‑1 (MQ=37)                                                                                          aatgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGttt                                                            <  2:74343/143‑1 (MQ=255)                                                                                          aatgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATGGTTACGttt                                                            >  2:641664/1‑143 (MQ=255)                                                                                            tgaaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGGTTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAg                                                          <  2:284694/143‑1 (MQ=255)                                                                                              aaatgaCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGACATGATATTGTTACGTATAGGt                                                        >  2:234287/1‑143 (MQ=255)                                                                                                      gAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCCTTGAGTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGaa                                                <  2:608933/143‑1 (MQ=255)                                                                                                           aGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGGATTGTTAGGTTTAGGTAACGAGAAATTTGTCTGca                                     >  1:63375/1‑149 (MQ=255)                                                                                                                agaagaATTTCCCCGCTGATTCTCACCGTCCCGAACTAAGCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAgg                                <  1:108452/149‑1 (MQ=255)                                                                                                                   catgtgtCCCCGTTTATTCGCACCTTCCCCACCCAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCATAGTCGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGAtt                             <  1:373382/143‑1 (MQ=255)                                                                                                                     aaTTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTGGTCTGCACAAg                                 >  2:329460/1‑143 (MQ=255)                                                                                                                            ccGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCGTGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGa                    >  1:89944/1‑149 (MQ=255)                                                                                                                               cTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAGGGCTTACATCATGATTa                 >  1:688830/1‑149 (MQ=255)                                                                                                                               cTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTAcatca                       >  2:271746/1‑143 (MQ=255)                                                                                                                                ttATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTAt                <  1:289754/149‑1 (MQ=255)                                                                                                                                 tATTCGCACCTTCCCTAACTGATCAATGCGTTGACTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATg               <  1:702420/149‑1 (MQ=255)                                                                                                                                   ttCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAAGTGGTCTGCAAAAGGATTACATATGGATCATGGc             >  1:692908/1‑149 (MQ=255)                                                                                                                                     cggaCCTTCTCTAACTTATCAATGCGTTGATTGTAAAGTCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTa                 <  2:87929/140‑1 (MQ=255)                                                                                                                                              ccTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGt  <  1:723570/149‑1 (MQ=255)                                                                                                                                              |                                                                                                                                                     TGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCCTAACTAATCAATGCGTTGATTGTAAATCCAGCTAAGAGGTGAGGTTTTCAGAGCAGACAACGGTGAAATGTCATGGTATTGTTACGTTTAGGTAACAAGAAATTTGTCTGCACAAGGATTACATCATGATTATGGCGAAACTGAAGT  >  CP009273/1391354‑1391643

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.