New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 287112	NA (NA)	10 (0.490)	8/278	NT	62.5%	noncoding (1/768 nt)	IS1	repeat region
	?	CP009273	= 1973068	6 (0.290)					intergenic (‑614/‑166)	flhD/uspC	flagellar class II regulon transcriptional activator, with FlhC/universal stress protein

GATAGCGCTGATGTCCGGCAGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTTGCTGGCATGGGGCTGGTGATGGAGGTGCA  >  CP009273/286967‑287260                                                                                                                                                  |                                                                                                                                                     gaTAGCGCTGATGTCCGGCAGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAAt                                                                                                                                                  >  2:197833/1‑150 (MQ=31)       gcTGATGTCCGGCAGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAg                                                                                                                                            <  2:3371/150‑1 (MQ=35)               ccGGCGGGGCTTTTGCCGGGACGCACCACCCCGTCAGTAGCTGAACAGGAGGAACAGCTGATAGAAACAGAAGCCAAAAAAAAAAAAAAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATg                                                                                                                                    <  1:154771/150‑1 (MQ=14)               ccGGCAGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCGGAACAGGAGGGACAGCTGATACAAACAGAAGCCACTGGAGCACCTCAAAAACACCAACATACACTAAATCAGTAAGTGGGCAGCATCACAGACGCATGAGCCCGGAta                                                                                                                                    >  1:74503/1‑149 (MQ=1)                                   aCGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGGAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGACTTTTCAGCCCGGATGTTTCACGTACCTATGTCGaa                                                                                                                <  2:300816/150‑1 (MQ=255)                                    cGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAat                                                                                                               >  2:133864/1‑150 (MQ=255)                                              cGTCGGTAGCTGAACAGGACGGTCAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGa                                                                                                     <  2:259057/150‑1 (MQ=255)                                                      gCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCTGCATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTg                                                                                             <  2:140919/150‑1 (MQ=255)                                                           aCAGGAGGACAAGCTGATAGAAACATAAGCCACTGGAGCAACTCAAAAACACCATCATACACTAAATCAGTAAGGTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGAt                                                                                        <  2:146223/150‑1 (MQ=25)                                                             aggaggGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCg                                                                                      <  1:352907/150‑1 (MQ=255)                                                                       acgtatcgacaCAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCAGCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGAt                                                                            <  2:209224/140‑1 (MQ=255)                                                                        cTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATg                                                                           >  2:345246/1‑150 (MQ=255)                                                                                taCAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGaa                                                                   <  1:42868/149‑1 (MQ=255)                                                                                    caaGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATc                                                               <  1:326643/149‑1 (MQ=255)                                                                                         cACTGGAGCACCTCACAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGCTGTTTCACGTACCCATGTCGAATCTCTGGCCGCTGAGGGTGCGGATCGCGACACCGTTGCAGCGGAATATCTGGaa                                                          >  1:74226/1‑150 (MQ=21)                                                                                             ggAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTgcaagcaa                                                      <  1:133864/150‑1 (MQ=255)                                                                                                   ccTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGGAGCAATCATgg                                                >  2:52088/1‑150 (MQ=255)                                                                                                     tCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAg                                              >  1:42189/1‑150 (MQ=255)                                                                                                     tCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAAACATGGAg                                              >  1:219699/1‑150 (MQ=255)                                                                                                     tCAAAAACACCAGCATACACTAAATCAGTAAGTTGGCAGTGTCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAg                                              <  1:184366/150‑1 (MQ=255)                                                                                                            ccccATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAATCCATTATGTAGGCTCgtc                                       <  1:220488/148‑2 (MQ=39)                                                                                                              ccATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCACAGGAATATCTGGAAGCAATCATGGAGGCTCGTGtt                                     >  2:199624/1‑150 (MQ=255)                                                                                                                       acTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCATGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGGGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTTGcg                            >  1:46276/1‑149 (MQ=255)                                                                                                                         agaactaggaaGGTGGCAGCATCACCGAGTTTTCAGCCCGGAGGGTTGACTTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTTGCTgg                          <  1:47742/141‑1 (MQ=255)                                                                                                                             tCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTTGCTGGCATg                      >  2:323504/1‑150 (MQ=255)                                                                                                                                 gcagtgtgccgcgtCACCGAATCTTCCGCCCGGGTGGTTCACGTACCTATGTCGAATATCTGGCCGATATGGTTGCGGATCGAGAAGAGGATGCAGTGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTAGCTGGCACGGTGc                  <  1:132937/137‑1 (MQ=255)                                                                                                                                         cagcaTCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTTGCTGGCATGGGGCTGGTGATg          <  1:283421/150‑1 (MQ=255)                                                                                                                                             aTCACCGGATGTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTTGCTGGCATGGGGCTGGTGATGGAgg      <  1:197833/150‑1 (MQ=255)                                                                                                                                              tCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGGTGCTGGGATGGGGCTGGTGGTGGAggg     >  1:188826/1‑149 (MQ=255)                                                                                                                                              tCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATAGCTGGAAGCAATCATGAAGGCTCGTGGTACCGTTGCTGGCAGGGGGcgcgggcgggaggg     >  2:211497/1‑137 (MQ=255)                                                                                                                                                 ccGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTTGCTGGCGAGGGGCTGGTGATGGCGGTGCa  >  1:43388/1‑150 (MQ=255)                                                                                                                                                 ccGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGAAATTATGGAGGCTCGTGTTACCGTTGCTGGCATGGGGCTGGTGATGGAGGTGCa  >  2:350913/1‑150 (MQ=255)                                                                                                                                                  |                                                                                                                                                     GATAGCGCTGATGTCCGGCAGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCGAATTTTCAGCCCGGATGTTTCACGTACCTATGTCGAATATCTGGCCGATAAGGTTGCGGATCGAGAAGAGGATGCAGAGGAATATCTGGAAGCAATCATGGAGGCTCGTGTTACCGTTGCTGGCATGGGGCTGGTGATGGAGGTGCA  >  CP009273/286967‑287260

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ 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.