New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 3180784	NA (NA)	14 (0.370)	13/312	NT	7.7%	pseudogene (5/2445 nt)	yqiG	pseudogene; fimbrial export usher family;putative membrane; Not classified; putative membrane protein
	?	CP009273	= 3651934	169 (4.400)					coding (209/528 nt)	gadE	gad regulon transcriptional activator

TGAAAACGATAAAGCGTGACTACATCAGTATCATGCCCAAACCAGACGGGTTAACGGCAGCAAAGAACCTTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACGCCAATCCACCTTGACCTCCAATGGGTATTAATTGATAACCAAACTGCAGTTTGCGTGACAC  >  CP009273/3180578‑3181008                                                                                                                                                                                                               |                                                                                                                                                                                                                                 tGAAAACGATAAAGCGTGACTACATCAGTATCATGCCCAAACCAGACGGGTTAACGGCAGCAAAGAACCTTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTAATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCAAAg                                                                                                                                                              >  2:608175/1‑275 (MQ=255)                             tATCATGCCCAAACCAGACGGGTTAACGGCAGCAAAGAACCTTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAAAGTTAACCTTTCCCAAtt                                                                                                                                  >  1:23234/1‑275 (MQ=255)                                  tGCCCAAACCAGACGGGTTAACGGCAGCAAAGAACCTTGCAGAGGCATTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGCATATCTGCGGCAGCGGGCTTGTCATGGGTCAAGTGGTAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATGTGTTGTGCTTCAGCTTATGCCGCTGAATTCAACAAAGATTTAATCGCAGCCGCAGATAGTGAAAACGTTAACCTTTCCNCATTTGaac                                                                                                                             >  2:276969/1‑274 (MQ=18)                                  tGCCCAAACCAGACGGGTTAACGGCAGCAAAGAACCTTGAAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTCCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTTGAAAGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCATCTTATGCCGTTAAATTAAACAAAGATTTAATCGAAACAGTAGTTTTTTAAAAAGTTAACCTTTCCTaagtataaa                                                                                                                             >  2:243422/1‑268 (MQ=17)                                      cAAACCAGACGGGTTAACGGCAGCAAAGAACCTTGCAGAGGCGTTCGAGCATNATAACGAANGGCATCCGCATACTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAAATCAACAACGATTTAATCGAAGCCGAAGATCGTGa                                                                                                                                                       <  1:463461/245‑1 (MQ=255)                                                   ttAACGGCAGCAAAGAACCTTTCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGNTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACATTTCCCAATTTGAAACTGATGGCAAATTAccc                                                                                                            >  1:505318/1‑275 (MQ=255)                                                                       tGCAAAGGCGTTCGAGCATTATAACGAATGGCATCAGCCTAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTAGTAATGGGTTAAGTGATAACAGATGTATGGAATTATGGGGGCAAATCCAGTTATCATCATTGGTGGTGCGTCAGCTTATGCAGTTGAATTCAACAAAGATTAAATCGAAGCCGAAGATCGTGAAAACGGTAACCTTACCCAATTTGAAACTGAGGGCACATTACCCGACGGCAAatagtaagaaaa                                                                                        >  2:711679/1‑266 (MQ=21)                                                                            agGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGAGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTAGAAACTGATGGCCAATTACCCGTCGGCAAAAATTCAATAATCaacc                                                                                   >  2:224049/1‑272 (MQ=255)                                                                                gTTCGAGCATTATAACGAATGGCATTCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCAct                                                                                    <  1:224054/270‑1 (MQ=255)                                                                                  tCGAGCATTATAACGAATGTCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCTGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATta                                                                             >  1:587586/1‑275 (MQ=255)                                                                                        aTTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATtaataaa                                                                        >  1:290320/1‑273 (MQ=255)                                                                                                        tCCGCATAGTGCGCTGGGTGATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATAGTGAAAACGTTAACCTTTCACAATTTGAAACTAATGGCCAATTCCCCGTCGGAAAATATTAACCAAGCACTACGAATAATAAAAAGATGACgagacgagc                                                       >  2:122926/1‑267 (MQ=25)                                                                                                                gTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTNAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACGCCAATCCACCTTg                                                  <  1:608184/272‑1 (MQ=255)                                                                                                                 tGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCt                                                                                                                                           >  1:245787/1‑182 (MQ=255)                                                                                                                     cgtgggtATCGCACGACACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACGCCAATCCACCTTGACCTCCaa                                          <  2:290314/269‑1 (MQ=255)                                                                                                                     cTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTcc                                                                                                                                       <  2:245782/182‑1 (MQ=255)                                                                                                                                  cgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGaa                                                                                                                              >  2:585603/1‑178 (MQ=255)                                                                                                                                      aCGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTg                                                                                                                          <  1:585612/178‑1 (MQ=255)                                                                                                                                                    ggCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAGGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAagag                                                                   >  1:141972/1‑219 (MQ=255)                                                                                                                                                        gCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAGGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACg                                                               <  2:141971/219‑1 (MQ=255)                                                                                                                                                             ctttttattgtttAAGTGATAACATATGTATGGAAATATAGGGGCAAATACAGTTATCATCATTGGGTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACGCCAATCCACCTTGACCTCCAATGGGTATTAATTGATAACCAAACTGCAGTTTGCGTGacac  <  1:122927/264‑1 (MQ=255)                                                                                                                                                                           aGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAg                                                                                        >  1:247115/1‑175 (MQ=255)                                                                                                                                                                               aTAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCAct                                                                                    <  2:247110/175‑1 (MQ=255)                                                                                                                                                                                tAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGCTCGTGAACACGTTAACCTTTCCCAATTTGACACTGATGGCCAATTAc                                                                                                              >  2:114665/1‑148 (MQ=255)                                                                                                                                                                                 aaCAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACg                                                               >  2:85166/1‑194 (MQ=255)                                                                                                                                                                                    aGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGt                                                                                                          <  1:114666/148‑1 (MQ=255)                                                                                                                                                                                     gATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACGCCaa                                                           <  1:85167/194‑1 (MQ=255)                                                                                                                                                                                       tGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACGCCAATCCACCTTGACCt                                              >  2:521103/1‑205 (MQ=255)                                                                                                                                                                                         tCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAAc                                                                                                                            >  2:372971/1‑125 (MQ=255)                                                                                                                                                                                           tGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACGCCAATCCACCTTGACCTCCaa                                          <  1:521110/205‑1 (MQ=255)                                                                                                                                                                                             gAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGAt                                                                                                                        <  1:372977/125‑1 (MQ=255)                                                                                                                                                                                                               |                                                                                                                                                                                                                                 TGAAAACGATAAAGCGTGACTACATCAGTATCATGCCCAAACCAGACGGGTTAACGGCAGCAAAGAACCTTGCAGAGGCGTTCGAGCATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCAAATATTCACTAAGCACTCTGATTAATAATAAGAGGACGCCAATCCACCTTGACCTCCAATGGGTATTAATTGATAACCAAACTGCAGTTTGCGTGACAC  >  CP009273/3180578‑3181008

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 21 ≤ 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.