Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	2,024,155	IS5 (+) +4 bp	coding (188‑191/624 nt)	rcsA →	transcriptional regulator of colanic acid capsular biosynthesis

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2024155 =	0 (0.000)	60 (1.160)	49/282	0.1	100%	coding (188/624 nt)	rcsA	transcriptional regulator of colanic acid capsular biosynthesis
	?	NC_000913	2101749 =	NA (NA)					noncoding (1195/1195 nt)	IS5	repeat region
*	?	NC_000913	= 2024158	0 (0.000)	77 (1.480)	54/282	0.0	100%	coding (191/624 nt)	rcsA	transcriptional regulator of colanic acid capsular biosynthesis
	?	NC_000913	= 2290113	NA (NA)					noncoding (1/1195 nt)	IS5	repeat region

AAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGA  >  NC_000913/2289972‑2290255                                                                                                                                              |                                                                                                                                               aaGAAAATCTCTTTTATGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACCTATGATGAACCCTGTTCTAGGGCTGCAGATGACAAACAAGATATCATATCATGGACTTATTCGCACCTTCCa                                                                                                                                               >  2:364866/1‑143 (MQ=11)     aaaTCGCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGAGGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAAc                                                                                                                                           <  1:482471/143‑1 (MQ=18)       aTCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGc                                                                                                                                         >  2:456310/1‑143 (MQ=34)        tctcTTTTCTGGTCTGACGGCGCTTACTGCTGAGTTCACTGTCGGCGAAGGTAAGTTGATGACGCATGATGAACCCTGGTCTATGGCTCCAGATGACAAACATGGTCTCATATCAGGGACTTGGTCGCACCTTCCATAACGCt                                                                                                                                        >  1:323904/1‑143 (MQ=11)        tctcTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGAGGACCCCTCTTCTATGGCTCCAGATGACAAACATGATCTCATATCACGGACTTGTTCGCACCTGCCATAACGCt                                                                                                                                        >  2:699272/1‑143 (MQ=11)            ttttCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACGCTGTGCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGAATTGTTCGAACCTTCCATAACGGTGCAg                                                                                                                                    >  2:112959/1‑143 (MQ=11)               tCTGGTCCGACGGCGCTTACTGCTGAATTCACCGCCGGCGAAGGTAAGTTGATGCCTCATGATGAACCCTGTGCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGcca                                                                                                                                 <  1:238789/143‑1 (MQ=14)                ctcgTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGccac                                                                                                                                <  1:789694/140‑1 (MQ=255)                cTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGccac                                                                                                                                >  1:149217/1‑143 (MQ=255)                cTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGccac                                                                                                                                <  1:898969/143‑1 (MQ=255)                cTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGccac                                                                                                                                <  1:275232/143‑1 (MQ=255)                   gTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAg                                                                                                                             >  2:41572/1‑143 (MQ=255)                       gACGGCGCTTAGTGCTTAATGCTCTGTCGGCGAAGGTAAGTTGATGACTGATGATGAACCCTGTTCTATGGCTGCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACa                                                                                                                         <  2:451097/143‑1 (MQ=17)                       gACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACGCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTAGCACCTTCCATAACGCCGTAGCCACCAGAACa                                                                                                                         >  1:647323/1‑143 (MQ=255)                        aCGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGCACAg                                                                                                                        >  2:19026/1‑143 (MQ=255)                        aCGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAg                                                                                                                        >  1:536327/1‑143 (MQ=255)                        aCGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAg                                                                                                                        >  2:681469/1‑143 (MQ=255)                               ttACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGc                                                                                                                 >  1:384095/1‑143 (MQ=255)                                 aCTGCTTAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCgg                                                                                                               <  1:583569/143‑1 (MQ=255)                                   ttctgAATTCCCTGTCGTCGAAGGTACGTTGATGACGCATGATGAACCCTCTTCTATGGCTCCAGATGACAAACATGATCTCATATCCGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGaa                                                                                                             <  2:32216/141‑1 (MQ=18)                                   tgctgAATTCACTGTCGGCGAAGGTAAGTTGCTGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACGAACATGATCTCATATCAGGGCCTTGTTCCCACCCTCCATAACGCTGTAGCCACCAGCACAGACATCGCGGaa                                                                                                             >  2:141522/1‑143 (MQ=17)                                   tactgAGTTCACTGTCGGCGAAGCTAAGTGGCTGACTCATGATGACCCCTGTTCTATGGCTCCAGATGACACCCATGACCTCATATCAGGGACTTGTTCGCACCTGCCATAACGCTGTAGCCACCAGAACAGATATTGCGGaa                                                                                                             <  2:27307/141‑1 (MQ=18)                                          ttCACTGTCGTCGAAGGTTAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACaaa                                                                                                      <  2:751036/143‑1 (MQ=255)                                            cACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAaga                                                                                                    <  1:359232/143‑1 (MQ=255)                                             aCTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGCACGACAAagag                                                                                                   >  1:255188/1‑143 (MQ=255)                                                 tCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAAc                                                                                               >  1:758686/1‑143 (MQ=255)                                                          gTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGa                                                                                      >  1:786095/1‑143 (MQ=255)                                                                       tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAg                                                                         >  1:160810/1‑143 (MQ=255)                                                                       tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAg                                                                         >  1:68460/1‑143 (MQ=255)                                                                       tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATCGATGCATTGAg                                                                         >  1:470598/1‑143 (MQ=255)                                                                       tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGAGCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAGACAGAACCAGATTGATGCATTGAg                                                                         <  1:202863/143‑1 (MQ=255)                                                                               aaCCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATc                                                                 >  1:306126/1‑143 (MQ=255)                                                                                aCCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATcc                                                                <  2:786095/143‑1 (MQ=255)                                                                                 cccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGACAGATGCATGGAGCTTTCATCCt                                                               >  2:372647/1‑143 (MQ=255)                                                                                      ttCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGaa                                                          >  1:809554/1‑143 (MQ=255)                                                                                      ttCTATGGCTCAAGATGACAAACATGATCTCATATCAGGGACCTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACACATACTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGaa                                                          <  1:747927/143‑1 (MQ=255)                                                                                          aTGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTACATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAACGAGAAACAGAACCAGATTGCTGCATTGACCTTTCCTCCTATGAaatta                                                      >  2:681578/1‑143 (MQ=38)                                                                                             gCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAaattaatt                                                   >  1:719414/1‑143 (MQ=255)                                                                                                tcatttGACATACATGATCTCATATTAGGGACTTGTTTGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCt                                                <  2:24791/138‑1 (MQ=255)                                                                                                    aTGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGAc                                                                                                         <  2:256037/82‑1 (MQ=255)                                                                                                    aTGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGAc                                                                                                         >  1:256037/1‑82 (MQ=255)                                                                                                                aTCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGt                                >  2:19650/1‑143 (MQ=255)                                                                                                                 tctcATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTa                               >  1:588742/1‑143 (MQ=255)                                                                                                                 tctcATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTa                               <  2:68460/143‑1 (MQ=255)                                                                                                                   tcATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGGTAAAAGCATTGGGTACa                             >  1:781/1‑143 (MQ=255)                                                                                                                     atatCAGGGACTTAATCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCATTCATCCTATGAAATTAATTGCTGTAAAAAGAATTGGGAACaaa                           >  2:839204/1‑141 (MQ=255)                                                                                                                       atCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATGGTGCGGAACGACAGAGAGAAACAGAACCAGATGGATGCATTGAGCTTTCATCCTGTGAAATTAATTGCTGTTAAAAGCATTGGGTACAGaaa                         >  1:428035/1‑143 (MQ=255)                                                                                                                        tCAGGGACTTGTTCGCATCTTCCATAACGCTGTAGACACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAATCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGaaaa                        <  2:728055/143‑1 (MQ=255)                                                                                                                         cAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACAAGTTTGTGACACATAACTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAAt                       >  1:218905/1‑143 (MQ=255)                                                                                                                           gggACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATAc                     <  2:255188/143‑1 (MQ=255)                                                                                                                           gggACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATGGCTGTTAAAAGCATTAGGTCCAGTAAATAc                     >  2:282359/1‑143 (MQ=255)                                                                                                                            ggACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGCAATTAATTGCTCTTAAAAGCATTAGGTACAGAAAATAcc                    >  2:795648/1‑143 (MQ=255)                                                                                                                            ggACTTGTTCGAACCTTCCATAACGCTGTAGCCACCAGAACAGATGTTGCGCAACGACAAAGAGAAACAGAACCAGATTGATCCATTGAGCTTTCATCCTATGAAAGTAATTGCTGTTAAAAGCATAGAGCACACACAATAcc                    >  2:801389/1‑143 (MQ=255)                                                                                                                                ttGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATa                >  1:511915/1‑143 (MQ=255)                                                                                                                                 tGTTGGCACCTTCCATAACGCTGGAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAg               <  1:922687/143‑1 (MQ=255)                                                                                                                                    tCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGCTGCATTGCGCTTTCATCCTATGAAATTCATTGCTGCTAAAAGCATTTGGTACAGAAAATACCCCTAGGTc            >  1:366310/1‑143 (MQ=255)                                                                                                                                            tCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCg    >  1:82885/1‑143 (MQ=255)                                                                                                                                             ccATAACGCTGTAGCCAACAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCgg   <  1:622991/143‑1 (MQ=255)                                                                                                                                              cATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCgta  >  2:480148/1‑141 (MQ=255)                                                                                                                                              cATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCAGTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCGATACCCGGa  >  2:483221/1‑143 (MQ=255)                                                                                                                                              |                                                                                                                                               AAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGA  >  NC_000913/2289972‑2290255

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ 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.