New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1269130 =	NA (NA)	9 (0.070)	4/166	NT	17.7%	intergenic (+111/+38)	kdsA/ldrA	3‑deoxy‑D‑manno‑octulosonate 8‑phosphate synthase/toxic polypeptide, small
	?	NC_000913	1269154 =	45 (0.340)					intergenic (+135/+14)	kdsA/ldrA	3‑deoxy‑D‑manno‑octulosonate 8‑phosphate synthase/toxic polypeptide, small

TGAAAAATAAAGTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGCCACCAGCT  >  NC_000913/1269031‑1269191                                                                                                    |                                                              tGAAAAATAAAGTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGgcgc                                                               >  1:2467507/1‑100 (MQ=255) tGAAAAATAAAGTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGgcgc                                                               >  1:1370611/1‑100 (MQ=255)  gAAAAATAAATTATTAGCGTTCTGCGTTAAGACGTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCa                                                              <  1:1744875/100‑1 (MQ=255)  gAAAAATAAAGTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCa                                                              >  2:3247864/1‑100 (MQ=255)       aTAAAGTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTg                                                         >  1:2090844/1‑100 (MQ=255)        tAAAGTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGc                                                        <  1:1651566/100‑1 (MQ=255)          atgTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCa                                                      <  1:2264281/98‑1 (MQ=255)            ntATTAGCGTTCTGCGTTAAGACTTTTTTTTTTTTTTCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATc                                                    >  1:2667578/2‑100 (MQ=18)            gTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATc                                                    <  1:3495671/100‑1 (MQ=255)            gTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATc                                                    >  1:3600550/1‑100 (MQ=255)            gTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATc                                                    >  1:2425248/1‑100 (MQ=255)            gTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATc                                                    <  2:560649/100‑1 (MQ=255)            gTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATc                                                    <  1:1437698/100‑1 (MQ=255)             tATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCa                                                   >  2:443480/1‑100 (MQ=255)              aTTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCAc                                                  >  2:715621/1‑100 (MQ=255)              aTTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCAc                                                  <  2:3148121/100‑1 (MQ=255)              aTTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCAc                                                  <  2:269018/100‑1 (MQ=255)               ttAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACg                                                 >  2:2762327/1‑100 (MQ=255)                tAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACgg                                                >  2:2944190/1‑100 (MQ=255)                tAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACgg                                                >  1:1161637/1‑100 (MQ=255)                 aGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGc                                               <  1:354356/100‑1 (MQ=255)                 aGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGc                                               >  1:908190/1‑100 (MQ=255)                 aGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGc                                               <  1:779070/100‑1 (MQ=255)                    gTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGc                                            >  2:1059722/1‑100 (MQ=255)                     ttCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCTCAGGCTGTTACCCGTGCGGCCGGTTTCGGGCGCATATTGCAATCACGGCAGcc                                           <  1:2563897/100‑1 (MQ=255)                     ttCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGcc                                           <  1:998399/100‑1 (MQ=255)                     ttCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGcc                                           <  1:2783265/100‑1 (MQ=255)                      tCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCt                                          <  2:1819171/100‑1 (MQ=255)                       cTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTg                                         >  1:824320/1‑100 (MQ=255)                          cGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACg                                      >  1:1041729/1‑100 (MQ=255)                           gTTAAGACTTTTTTTATTTTTTTTGGATACAAAAAAGGCCGCAGACTGTTACCCCTGCGACCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGAc                                       >  1:1120278/1‑98 (MQ=14)                            ttAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGcc                                    <  1:843977/100‑1 (MQ=255)                              aaGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCg                                  >  2:2991896/1‑100 (MQ=255)                               aGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGt                                 >  2:457281/1‑100 (MQ=255)                                gACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCg                                  >  1:2374437/1‑98 (MQ=255)                                 aCTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGTCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATAACGGCAGCCTGACGCCCGttt                               >  1:2434923/1‑100 (MQ=255)                                 aCTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGttt                               <  1:1006144/100‑1 (MQ=255)                                 aCTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGttt                               >  2:2491346/1‑100 (MQ=255)                                 aCTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGttt                               <  2:1904283/100‑1 (MQ=255)                                 aCTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGttt                               <  1:1421077/100‑1 (MQ=255)                                  cTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGTCTGTTACCCCTGCGGCCGGTTTCGGGCGCCGGTTGTCATCACGGCGGCCTGACGCCCGttt                               >  1:3222513/1‑99 (MQ=18)                                  cTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGtttt                              >  2:1866888/1‑100 (MQ=255)                                  cTTTTTTCATGGGTGCCGGAGACAAAAAAGGCCGCAGGCTGTTACCTCTGAGGCCGGTTTCGGGAGCATATTGCCATCACGGCAGCCTGACGCCCGtttt                              >  1:705946/1‑100 (MQ=17)                                      tttCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCAcc                          >  2:1212334/1‑100 (MQ=255)                                      tttCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCAcc                          <  2:1172861/100‑1 (MQ=255)                                      tttCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCAcc                          <  2:1116419/100‑1 (MQ=255)                                      tttCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCAcc                          <  2:615218/100‑1 (MQ=255)                                        tCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCtt                        <  2:2814509/100‑1 (MQ=255)                                        tCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCtt                        <  1:2963492/100‑1 (MQ=255)                                         cATGGGTGCCGGATACAAACAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTa                       <  1:3333695/100‑1 (MQ=255)                                          aTGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTAc                      <  2:3559206/100‑1 (MQ=255)                                          aTGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTAc                      <  2:3437737/100‑1 (MQ=255)                                           tGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGGCGCCCGTTTTCACCTTACt                     >  2:1070468/1‑100 (MQ=255)                                           tGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACt                     >  1:1344623/1‑100 (MQ=255)                                            gggTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACtt                    >  2:1472892/1‑100 (MQ=255)                                                gctggATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCgg                >  2:209506/4‑100 (MQ=255)                                                gCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCgg                >  1:699952/1‑100 (MQ=255)                                                 ccGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGt               >  1:1233/1‑100 (MQ=40)                                                 ccGGATACAAAAAAGGCCGCAGACTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGGCCCCCGTTTTCACCTTACTTCCg                 >  1:2167486/1‑98 (MQ=255)                                                  cGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCTGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGtt              <  1:1124265/100‑1 (MQ=255)                                                  cGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGtt              >  2:3310690/1‑100 (MQ=40)                                                   ggATACAAAAAAGGCCGCAGGCTGTTACCCCTGCTGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCgg                <  1:892617/97‑1 (MQ=255)                                                   ggATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGtt              <  1:1611363/99‑1 (MQ=38)                                                     aTACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACg           <  2:1304953/100‑1 (MQ=35)                                                     aTACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACg           <  2:674828/100‑1 (MQ=35)                                                       aCAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGcc         >  2:2137227/1‑100 (MQ=33)                                                       aCAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGcc         <  1:1472887/100‑1 (MQ=33)                                                        cAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGcca        >  2:2782604/1‑100 (MQ=33)                                                        cAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGcca        >  2:1993507/1‑100 (MQ=33)                                                        cAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGcca        >  1:652482/1‑100 (MQ=32)                                                        cAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGcca        >  1:1445901/1‑100 (MQ=33)                                                         aaaaaaGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGccac       >  1:896336/1‑100 (MQ=33)                                                         aaaaaaGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGccac       >  2:599602/1‑100 (MQ=32)                                                          aaaaaGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGccacc      >  2:2640471/1‑100 (MQ=32)                                                          aaaaaGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGccacc      >  1:1296136/1‑100 (MQ=32)                                                            aaaGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGCCACCAg    >  2:718939/1‑100 (MQ=32)                                                              aGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGTCTGACGCCCGTTTTCACCTTACTTCCGGTTACGCCACCAGCt  <  2:1338843/100‑1 (MQ=11)                                                                                                    |                                                              TGAAAAATAAAGTATTAGCGTTCTGCGTTAAGACTTTTTTCATGGGTGCCGGATACAAAAAAGGCCGCAGGCTGTTACCCCTGCGGCCGGTTTCGGGCGCATATTGCCATCACGGCAGCCTGACGCCCGTTTTCACCTTACTTCCGGTTACGCCACCAGCT  >  NC_000913/1269031‑1269191

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.