Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	3,553,103	IS5 (+) +4 bp	coding (19‑22/2706 nt)	malT →	mal regulon transcriptional activator

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2288919 =	NA (NA)	47 (0.960)	36/282	0.3	95.8%	noncoding (1195/1195 nt)	IS5	repeat region
	?	NC_000913	3553103 =	2 (0.040)					coding (19/2706 nt)	malT	mal regulon transcriptional activator
*	?	NC_000913	= 2290113	NA (NA)	69 (1.420)	41/280	0.2	98.5%	noncoding (1/1195 nt)	IS5	repeat region
	?	NC_000913	= 3553106	1 (0.020)					coding (22/2706 nt)	malT	mal regulon transcriptional activator

AAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGA  >  NC_000913/2289972‑2290255                                                                                                                                               |                                                                                                                                               aaGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCa                                                                                                                                               >  1:884245/1‑143 (MQ=11)     aaaTCTCTTTTCTGGTCTGACGGCGCTTCCTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAAc                                                                                                                                           <  2:612498/143‑1 (MQ=18)          tctTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATCTCAGGGA‑CTTGTCAGCCCCTTGTATAACGCTGt                                                                                                                                      >  2:96617/1‑143 (MQ=11)          tcgtttCTGGTCTGACGGCGCTTACTGCTGGATTCGCTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAAAGATGt                                                                                                                                      <  2:155065/140‑1 (MQ=11)             tttCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCGATAACGCTGTAGc                                                                                                                                   >  1:788407/1‑143 (MQ=38)             tttCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGCA‑CTTGTTCTCACCTTCCATAACGCTGTAGc                                                                                                                                   >  1:506937/1‑143 (MQ=255)              ttgtGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGcc                                                                                                                                  <  1:802562/140‑1 (MQ=255)               tCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGAGGACAAACATGATCTCATATCAGGGA‑CTTGGTGGCACCTTCCATAACGGGGTAgggc                                                                                                                                 >  2:658783/1‑140 (MQ=11)                     cTGACGGTGCTTACGGCTGAATTCACTGTGGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGaa                                                                                                                           <  2:781579/143‑1 (MQ=255)                      tGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTGGATGACTCATGATGAACCCTGTTCTATGGCTGCAGATGACAAACATGCTCTCATATCAGAGA‑CCTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAAc                                                                                                                          >  2:67120/1‑143 (MQ=14)                      tGACGGCGCGTACTGCTGGATTCGGTGTCGGCGGTGGTGTGTTGATGGCTGATGGTGTTTCTTGTTCTGTGGCTCCAGATGACAAACATGATCTCATATCAGGGT‑CTTCTTAGCACCTTCCATAACGCTGTAGCCACCAGAAc                                                                                                                          <  2:226043/143‑1 (MQ=12)                               ttACTGCTGAATGCGCTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATCGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGc                                                                                                                 <  2:737247/143‑1 (MQ=255)                                tACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCg                                                                                                                <  1:636660/143‑1 (MQ=255)                                   tgctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACCTGATCTCAGATCAGCGC‑CTACTTCGCACCTTCCATAACGCTGTAGCCCCCAGAACCGATATTGCGGaa                                                                                                             >  2:666348/1‑143 (MQ=17)                                     ctgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCCTCCATAACGCTGTAGCCACCAGAACAGATATCGCGGAACg                                                                                                           >  2:707567/1‑143 (MQ=255)                                      tgAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGACCAGATATTGCGGAACgc                                                                                                          >  1:671301/1‑142 (MQ=255)                                          ttCACTGTCGGCTAAGGTAAGTTGATGCCTCATGCTCAACCCATTCCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACaaa                                                                                                      <  1:602413/143‑1 (MQ=18)                                             aCTGTCGGCGAAGGTAAGTTGATGACACATGATGAACCCTGTTCTATGGCTCCAGATGACAAACAGGATCACATGTCAGGGA‑CTTGTTCGCAACGAACAAAACGCCGTAGCCACCAGAATAGATATTCCGACACGACAAacag                                                                                                   >  2:391342/1‑143 (MQ=14)                                               tGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATCACGCTGTAGCCACCAGAACAGCTAGTGCGGAACGACAAAGAGaa                                                                                                 >  2:792787/1‑143 (MQ=255)                                                gggggCGAAGGGAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGaaa                                                                                                <  2:170687/140‑1 (MQ=255)                                                 tCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGcc                                                                                                                                  <  2:239260/108‑1 (MQ=255)                                                 tCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGcc                                                                                                                                  >  1:239260/1‑108 (MQ=255)                                                 tCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAAc                                                                                               >  2:118511/1‑143 (MQ=255)                                                     cGAAGGGAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGaa                                                                                           <  2:401484/143‑1 (MQ=255)                                                          gTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCGCCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACCAAGAGCGACAGACCCAGa                                                                                      >  1:109625/1‑143 (MQ=21)                                                          gTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGa                                                                                      >  1:634066/1‑143 (MQ=255)                                                              gTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAACGAGAAACAGAACCAGATTGa                                                                                  >  2:23670/1‑143 (MQ=255)                                                                  atgaCTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCa                                                                              >  1:80538/1‑143 (MQ=255)                                                                      cTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGa                                                                          <  1:743695/143‑1 (MQ=255)                                                                       tCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACCAAGAGAAACAGAACCAGATTGATGCATTGAg                                                                         >  2:69161/1‑143 (MQ=255)                                                                         atgatgAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGAGATTGCGGAACGACAAGGAGAAACAGAACCAGATTGATGCATTGAGCt                                                                       >  1:378093/1‑143 (MQ=255)                                                                                 cccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACGAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCt                                                               >  2:767872/1‑143 (MQ=255)                                                                                         tATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAaatt                                                       >  2:718789/1‑143 (MQ=255)                                                                                          aTGGCTCCAGATGACAAACATGATCACATATGAGGGA‑GGTGTTCGCACCTTACATCACGCTGTAGCCAACAGAACAGATATTGCGGAACGACAAAGAGACACAGAACCAGGTTGATGCAGTGAGCTTTCATCCTACGAaattc                                                      >  2:58673/1‑142 (MQ=37)                                                                                            ggCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAaattaat                                                    <  1:369751/143‑1 (MQ=255)                                                                                                ccAGAAGACAATCGTGATCTCATATCAGCGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGAGATTGCGGAACGACAAAGAGAAACAGAACCAGCTTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCt                                                <  2:332069/143‑1 (MQ=255)                                                                                                 cAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCCGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTg                                               <  1:645638/143‑1 (MQ=255)                                                                                                   gATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGtt                                             >  1:425709/1‑143 (MQ=255)                                                                                                     tGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTaa                                           >  1:534539/1‑143 (MQ=255)                                                                                                       atgaaCACGAACTCATACCAAGAATCTTG‑TCGTACCTTACATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTaaaa                                         <  2:711241/140‑1 (MQ=255)                                                                                                       aCAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTaaaa                                         <  1:668473/143‑1 (MQ=255)                                                                                                         aaaCATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGc                                       >  1:755353/1‑143 (MQ=255)                                                                                                         aaaCATGATCTCATATCAGGGA‑CTTGTTCGCACCCCCCCCCACCCCGTAGCCACCAGAACAGATACTGCCCCACGACAAAGAGAAACAGCACCACATCGATGCATCCAGCTTTCAGCCTACGAAATTAATTCCTCTTACAAGc                                       >  2:486828/1‑143 (MQ=19)                                                                                                         aaaCATGATCTCATATCAGGGA‑CTTGGTCGTGTTAGTCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTCAAAAGc                                       >  2:316237/1‑143 (MQ=255)                                                                                                         aaaCATGATCTCATATCAGGGA‑CTGGTACAGAACAAGGTAAAGGTTGTAGGCACCAGAACAGATATGGCGGAAGTGGAGAGATTGACGGGACCAGATGGATGGATTGAGCTTTCGTCCTGTGAAATTAATCGCTGGTAAAAGc                                       >  2:357913/1‑143 (MQ=255)                                                                                                                   tcATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACa                             >  2:78291/1‑143 (MQ=255)                                                                                                                        tCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTAGGAAATTAATTGCTGGTAAAAGCATTGGGGACAGaaaa                        >  1:418648/1‑143 (MQ=255)                                                                                                                         cAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAAt                       >  2:755305/1‑143 (MQ=255)                                                                                                                          aGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATa                      >  2:832385/1‑143 (MQ=255)                                                                                                                                 ttGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATa                >  1:743726/1‑143 (MQ=255)                                                                                                                                    ttCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACCGAACCAGATTGATGCATTGAGCTTTCATCCTATCAAATTAATTGCTGTTAAACGCATTGGGCACAGACGATACCCATAGCt             >  2:608904/1‑143 (MQ=255)                                                                                                                                    ttCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCt             >  1:374765/1‑143 (MQ=255)                                                                                                                                     tCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATAATGCGAAAAGACCAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCAACCTAGGAAAATAATTGCTGTCAAAAGCATTGGGGACAGAAAATACCAAGAGCta            >  2:351926/1‑142 (MQ=255)                                                                                                                                         aCCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATa        >  2:694069/1‑143 (MQ=255)                                                                                                                                          ccTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCAGCCTATGAAATTAATGGCTGTTAAAAGCATTGGGTACAGAAAAGACCCATCGCTCCATaa       >  1:781743/1‑142 (MQ=255)                                                                                                                                               cATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGa  <  1:536517/143‑1 (MQ=255)                                                                                                                                               |                                                                                                                                               AAGAAAATCTCTTTTCTGGTCTGACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGA‑CTTGTTCGCACCTTCCATAACGCTGTAGCCACCAGAACAGATATTGCGGAACGACAAAGAGAAACAGAACCAGATTGATGCATTGAGCTTTCATCCTATGAAATTAATTGCTGTTAAAAGCATTGGGTACAGAAAATACCCATAGCTCCATACCCGGA  >  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 < 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.