New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3186094 =	NA (NA)	38 (1.360)	31/284	0.0	97.4%	intergenic (+6/‑91)	yqiG/insC1	pseudogene, fimbrial export usher family,putative membrane, Not classified, putative membrane protein/IS2 repressor TnpA
	?	NC_000913	= 4049915	1 (0.040)					noncoding (18/109 nt)	spf	Spot 42 sRNA antisense regulator of galK translation, Hfq‑dependent

CTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACA  >  NC_000913/3185953‑3186231                                                                                                                                              |                                                                                                                                          cTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAAGTGATTAAAAATATTTATTGTTCATTATCCGttatta                                                                                                                                          >  1:329043/1‑143 (MQ=255)     cGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACt                                                                                                                                      >  1:5613/1‑143 (MQ=255)     cGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACt                                                                                                                                      <  1:344626/143‑1 (MQ=255)            tCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGccccc                                                                                                                               >  1:477247/1‑143 (MQ=255)             ctcATTTGGCCGCGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCt                                                                                                                              <  1:284507/141‑1 (MQ=255)               cATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGa                                                                                                                            >  2:300449/1‑143 (MQ=255)                      ccGGGTTCGCACGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATATACTGTTAATTATCCGTAATTAACCTGGACACCTgcgccccca                                                                                                                     >  2:370319/1‑135 (MQ=255)                               cccGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCaa                                                                                                            <  1:405413/143‑1 (MQ=255)                                  gggcacaTCATGAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAGCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTAGCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAatat                                                                                                         <  2:86376/140‑1 (MQ=255)                                    ccACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATATATTGTTCATTATCCGTTAATACACTGGCCCCCTGAATCTCCAGTccaccacactca                                                                                                       >  2:299818/1‑137 (MQ=255)                                                 ggatgacggATAAGGGTATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGa                                                                                          <  2:48751/135‑1 (MQ=255)                                                     tAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGt                                                                                      >  1:241035/1‑143 (MQ=255)                                                         gATAAGTGGAACAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTGCAGTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa                                                                                  <  1:176601/143‑1 (MQ=255)                                                          aTAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTAAAAATTAAGAGAGTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGAGATAGTCTTaa                                                                                 >  2:169764/1‑143 (MQ=37)                                                               tgaaTCAGCTGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTa                                                                            <  1:124061/140‑1 (MQ=255)                                                                  aTCAGATGTATAAAAAATTAAAATTAACCACAATAAGAGAATTGATTAAAAATATTTATTGTTCATTATCCGATATTAGACTGGCCCACTGAATCTCCAGAAAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGtt                                                                         >  2:58558/1‑143 (MQ=255)                                                                        tGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGa                                                                   <  1:22785/143‑1 (MQ=255)                                                                         gTATAAAAAATTAAAGTTACCTATAATAACCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGAc                                                                  <  2:313677/143‑1 (MQ=21)                                                                                  attaaaattgaCCACACTACGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCTATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTg                                                         <  2:33277/143‑1 (MQ=255)                                                                                   ttaaaattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGCTAGTCTTAATACTAGTTTTTAGACTAGTCATTgg                                                        >  2:278822/1‑143 (MQ=255)                                                                                       aattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGaa                                                    >  2:110126/1‑143 (MQ=255)                                                                                       aattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGCGACAGTATTAATACTAGTCTTTAGACTAGTCATTGGAGaa                                                    >  2:399484/1‑143 (MQ=255)                                                                                         ttaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACa                                                  <  2:150682/143‑1 (MQ=255)                                                                                                  aTAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGAtgattga                                         <  1:369542/143‑1 (MQ=255)                                                                                                               ttAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCg                            <  1:162115/143‑1 (MQ=255)                                                                                                                 aaaaaTATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGga                          <  1:272037/143‑1 (MQ=255)                                                                                                                  aaaaTATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCGGgag                         >  2:127188/1‑143 (MQ=255)                                                                                                                     atatTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGaaa                      >  1:423150/1‑143 (MQ=255)                                                                                                                              gTTCATTATCCGGTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACgg             <  2:64888/143‑1 (MQ=255)                                                                                                                               ttCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAGTAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTGATTGGAGAACAGAGGATGGATGTCTTAGGGCCGGAGAAACGCAGACGGc            >  1:43249/1‑143 (MQ=255)                                                                                                                                         gTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGACAAAGAGATGGAGAGACGCAGACGGCGTCCcacaca  >  1:201372/1‑143 (MQ=11)                                                                                                                                              |                                                                                                                                          CTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACA  >  NC_000913/3185953‑3186231

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.