New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3186094 =	NA (NA)	41 (0.980)	35/284	0.2	95.3%	intergenic (+6/‑91)	yqiG/insC1	pseudogene, fimbrial export usher family,putative membrane, Not classified, putative membrane protein/IS2 repressor TnpA
	?	NC_000913	= 4049915	2 (0.050)					noncoding (18/109 nt)	spf	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent

CTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAG  >  NC_000913/3185953‑3186232                                                                                                                                                |                                                                                                                                           cTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGttatta                                                                                                                                           >  2:351915/1‑143 (MQ=255)  ttACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTTTTCATTAT‑ACGTTATTAg                                                                                                                                          >  1:490623/1‑143 (MQ=255)    aCGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGAc                                                                                                                                        <  1:271091/143‑1 (MQ=255)      gAGTACTCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTg                                                                                                                                      <  1:45863/143‑1 (MQ=255)        gTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTgac                                                                                                                                    >  1:80531/1‑141 (MQ=255)         tAATCGCATTTTGCCGGGTTCGCCCGGCCACATCACTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGcc                                                                                                                                   <  2:533510/143‑1 (MQ=255)              gCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTg                                                                                                                              >  1:581615/1‑143 (MQ=255)                    ggCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATCGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAAtctc                                                                                                                        <  1:379271/143‑1 (MQ=255)                       cGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAg                                                                                                                     >  1:677982/1‑143 (MQ=255)                           ttCGCCCGTCCACAACAGTAACGGATTAATCATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCTTTATTAGACTGGCCCCCTGAATCTCCAGACaa                                                                                                                 <  2:382636/143‑1 (MQ=255)                             cGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGCCAAcg                                                                                                               >  2:488071/1‑142 (MQ=255)                             cGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCACCCTGAATCTCCAGACAAcc                                                                                                               >  1:251094/1‑143 (MQ=255)                               cccGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATAGATTAAAAATATTTATAGTTCATAAT‑CCGTTATTAGACTGCCCCCCTGAATCTCCAGACAACCaa                                                                                                             >  2:82333/1‑143 (MQ=255)                                 cgcccACATCCTTACCGGATTAATGATAAGTGGATCCGATGCATCACAAATTACAAAAAACC‑CATTTAGCCGTCTTGATTAAAAATATTTATTGTCAATTATAGCATAAATGTTCT‑GTTCCCTGAATCTCCAGACAACCAata                                                                                                           <  2:186215/140‑1 (MQ=255)                                   gCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATc                                                                                                         >  2:500569/1‑143 (MQ=255)                                      acaTCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACt                                                                                                      <  2:274587/143‑1 (MQ=255)                                         tcatTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTaa                                                                                                   <  2:142491/143‑1 (MQ=255)                                             tAACGGATTAATGATAAATGGAGCAGATGTATAAAAAATCAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTCCATTAT‑CCGTTATTAAACTGGACCCCTGAATCCCCAGACAACTAACATCACCTAAATac                                                                                               >  2:91112/1‑142 (MQ=255)                                               aCGGCTTAATGATAAGTGGATCAGATGTATACAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAACAATATTTATTGTTCCTTAT‑CCGTTATTAGACTGACCCCCCCAATCTCCCGCCACCGAATATCTCttcaccacgt                                                                                             >  2:151249/1‑135 (MQ=255)                                                 ggATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGa                                                                                           <  2:193820/143‑1 (MQ=255)                                                   aTTAGTGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATa                                                                                         <  2:572738/143‑1 (MQ=255)                                                          aTAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTaa                                                                                  <  1:120662/143‑1 (MQ=255)                                                           tAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAt                                                                                 <  2:653714/143‑1 (MQ=255)                                                            aaGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATa                                                                                <  2:581615/143‑1 (MQ=255)                                                              gTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt                                                                              >  2:367255/1‑143 (MQ=255)                                                                  aTCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTGAAATAAGTGATAGTCTTAATACTAGtg                                                                          >  1:583922/1‑142 (MQ=255)                                                                   tCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGttt                                                                         >  2:455604/1‑143 (MQ=255)                                                                   tCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATATATTGATCATTAT‑CCGTTATTACACTGACCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTCATACtgaaat                                                                         >  2:311195/1‑138 (MQ=37)                                                                     ggtggTATAAAAAATAAAAATT‑ACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGtttttn                                                                      <  1:84029/139‑2 (MQ=255)                                                                      gATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTa                                                                      <  2:229525/143‑1 (MQ=255)                                                                        tGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGa                                                                    <  1:477663/143‑1 (MQ=255)                                                                        tGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGa                                                                    <  1:173158/143‑1 (MQ=255)                                                                           ataAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTa                                                                 <  2:269583/143‑1 (MQ=255)                                                                                  attaaaattaaCCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATGTCCAGACAACCAATATCACCTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGACATTg                                                          >  2:590380/1‑143 (MQ=255)                                                                                   ttaaaattaaCCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTgg                                                         <  1:351915/143‑1 (MQ=255)                                                                                    taaaattaaCCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGga                                                        <  1:660046/143‑1 (MQ=255)                                                                                       aattaaCCACAATAAG‑CGAATTGATTACAAATATATATTGTTCATTAA‑CCATTATTAGACTCGCCCCCTGAATCTCCAGTCAACCAATATCACTTAAATTCGTGATAGTATTAATACCAGGATTTAGAACAGTCATTGgacga                                                     >  2:190141/1‑140 (MQ=255)                                                                                       aattaaCCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCCTAATACTAGTTTTTAGACTAGTCATTGGAGaa                                                     <  1:448781/143‑1 (MQ=255)                                                                                              cacaATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAgatga                                              <  1:627672/143‑1 (MQ=255)                                                                                               ataaTGAG‑CGAATAGAGTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAgatgat                                             <  2:217879/141‑1 (MQ=255)                                                                                                 aaTAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGAtgattg                                           >  1:84331/1‑143 (MQ=255)                                                                                                   ttaG‑CGAATTGATCAAAAACTTTTATTGTTCATTAT‑CCGTCATTAGTCTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGAtgattgat                                         <  2:646075/141‑1 (MQ=17)                                                                                                    caG‑CGAATTGATTAAAAATATTTATTGTGCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACATATGATTGATg                                        <  2:225517/142‑1 (MQ=255)                                                                                                          aaTTGAATAAAACTATTCATTGTTCGTTAT‑CCCTTATTAGACTGTTCCCCTCAATCTCCAGACAACCAATATCAGTTAAATAAGTGATAGTATTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTa                                   <  2:239515/143‑1 (MQ=14)                                                                                                                       tatttagtGGTCTGTAT‑GCGTTATGTGCGTGGCCCCCTGAAGCGCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAGACTAGTTTTTAGACTAGTCATTGGAGAACAGATGTTTGATGTCTTAGGGCCGGAGAAAc                      <  2:580311/143‑1 (MQ=11)                                                                                                                             ttGTTCATGAT‑CCGCTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGAc                <  1:21310/143‑1 (MQ=255)                                                                                                                              tttttcttttttcGTTTTTATGCTGGCCCCAGGAAGCGCCAGACAACCAAGAGCACTTAAATAAGTGAGAGTCTCAACACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGAc                <  1:82333/131‑1 (MQ=11)                                                                                                                                  cATTAT‑CCGTTATTAGCCTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTACTACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTTATTTCTTAGGGCCGGAGAAACGCAGACGGCGt           <  2:27409/143‑1 (MQ=255)                                                                                                                                  cATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCATACAACCAATATCACTTCAATAAGTGGTAGTCTTGATACTAGTTTTTAGACTAGTCATTGGAGAGAAGGCGTTCAAATTCATAGTGCCGGAGAAACGCAGACGGCGt           <  2:599559/143‑1 (MQ=14)                                                                                                                                       t‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGGACAGATGATTGATGTCTTAGGGCCGGAGCAACGCAGTCGGCGTTCcac      >  1:97345/1‑143 (MQ=255)                                                                                                                                            ttattaGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAg  >  1:131042/1‑143 (MQ=32)                                                                                                                                                |                                                                                                                                           CTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAG‑CGAATTGATTAAAAATATTTATTGTTCATTAT‑CCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAG  >  NC_000913/3185953‑3186232

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.