Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	4,365,526	IS2 (–) +5 bp	coding (1244‑1248/1302 nt)	dcuA ←	C4‑dicarboxylate transporter DcuA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3186096 =	NA (NA)	49 (1.070)	45/478	0.1	96.0%	noncoding (1/1331 nt)	IS2	repeat region
	?	NC_000913	4365526 =	2 (0.040)					coding (1248/1302 nt)	dcuA	C4‑dicarboxylate transporter DcuA
*	?	NC_000913	= 3187426	NA (NA)	52 (1.140)	46/476	0.1	96.2%	noncoding (1331/1331 nt)	IS2	repeat region
	?	NC_000913	= 4365530	2 (0.040)					coding (1244/1302 nt)	dcuA	C4‑dicarboxylate transporter DcuA

TTCAACAATACCAACAGCTATCAGGAACTGAATTTCAAAGCTCGTATGGAATCCCCAAGCAAAGATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGCGTAAGC  >  NC_000913/3185846‑3186340                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                     ttCAACAATACCAACAGCTATCAGGAAATGAATTTCCGAGCTCGTATGGAAACCCCAAGAGAAGCTGACCCCCCGGGCAACGCTTACGCTAAGGCTGACAAAACGATTGCTTACGCGTAATCGCATTTGACCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAATGGGTCAGATGTATAACAAATAAGAATTAACCACAAAAAGCGCATTTATTAAAAATAATTATTGTTCATTACCCGatatt                                                                                                                                                                                                                                                      >  2:431380/1‑251 (MQ=255)             aaCAGCTATCAGGAACTGAATTTCAAAGCTCGTATGGAATCCCCAAGCACAGATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGccccc                                                                                                                                                                                                                                          <  1:251070/251‑1 (MQ=255)                    aTCAGGAACTGAATTTCAAAGCTCGTATGGAATCCCCAAGCAAAGATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATAAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAAtct                                                                                                                                                                                                                                   >  1:359088/1‑251 (MQ=255)                      cAGGAAATGAATTTCAAAGCTCGTATGGAATCCCCAAGCCAAGATGCCACCCCGGGCAACGTTTAAGCTAAGGCTGACTACAAGATTGCTTACGAGTAATCGAATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTcc                                                                                                                                                                                                                                 >  2:441890/1‑251 (MQ=255)                               aaTTTCAAAGCTCGTATGGAATCCCCAAGCAAAGATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAAcc                                                                                                                                                                                                                         >  1:127033/1‑250 (MQ=255)                                   tCAACGCTCGTATGGAATCCCCAATCAAAGATTCCTCCCCCGGCAACTTTTACGCTCAGGCTTACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAata                                                                                                                                                                                                                     <  1:72860/250‑1 (MQ=255)                                           cGTATGGAATCCCCAAGCAAAGATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTaa                                                                                                                                                                                                             >  1:309329/1‑250 (MQ=255)                                              aTGGAATCCCCAAGCAAAGATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATa                                                                                                                                                                                                          >  2:152985/1‑250 (MQ=255)                                                           gCAAAGATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTa                                                                                                                                                                                             >  2:365197/1‑250 (MQ=255)                                                                gATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACt                                                                                                                                                                                        >  1:124373/1‑250 (MQ=255)                                                                          cGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATc                                                                                                                                                                                                                   >  1:38145/1‑213 (MQ=255)                                                                          cGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATc                                                                                                                                                                                                                   <  2:38145/213‑1 (MQ=255)                                                                             gCAACGTTTACGCGCAGGCTGACTACAAGATTGCTGACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCATACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAg                                                                                                                                                                          <  2:309329/251‑1 (MQ=255)                                                                                aCGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAAt                                                                                                                                                                                                                                     >  2:48970/1‑189 (MQ=255)                                                                                aCGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAAt                                                                                                                                                                                                                                     <  1:48970/189‑1 (MQ=255)                                                                                  gTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGTCTGGTTAGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATGAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCAtt                                                                                                                                                                     <  1:436179/251‑1 (MQ=255)                                                                                                            tGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAgg                                                                                                                                           >  1:184985/1‑251 (MQ=255)                                                                                                                                                            aCGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGt                                                                                           <  2:230980/251‑1 (MQ=255)                                                                                                                                                                aTTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTc                                                                                         >  1:349653/1‑249 (MQ=255)                                                                                                                                                                                               attaaaattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTccc                                                        >  2:157452/1‑251 (MQ=255)                                                                                                                                                                                                  aaaattaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCg                                                     >  1:477753/1‑251 (MQ=255)                                                                                                                                                                                                   aaattcaactcaATAAGCGGCTTGATTAAAAATCTTCCTTGTTCCTTATCCGATATTATCCTGACCCCCTAAGTCTCCAGACAACCAATATCACTTAAATAAGTGCTAGCCTCAATCCTAGTTTTTAGACTAGTCCTTGGAGAACAGATGCTCGCTATCTTCGCGCCGGCGAACCGCAGACGGCGTCCCCCACAGGCAACGATCCCACCTGCTCAGCACAGCTTTCAAACGCGCATGTCGGTCTCCCTcac                                                    >  2:32802/11‑249 (MQ=2)                                                                                                                                                                                                      ttaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCa                                                                                                                                                                                                                  >  2:365623/1‑90 (MQ=255)                                                                                                                                                                                                      ttaaCCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCa                                                                                                                                                                                                                  <  1:365623/90‑1 (MQ=255)                                                                                                                                                                                                           cacaATAAGCGCATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCACCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAAAACAAATGATTGATGTCTTAGGGCAGGAGAAACGCAGACGTCGTACCACCCAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTACACCGGGGATGACGGTCTCCCTCGTTTCCCGGc                                            >  2:416351/1‑251 (MQ=17)                                                                                                                                                                                                                tAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGtt                                                                                          >  2:346327/1‑200 (MQ=255)                                                                                                                                                                                                                tAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGtt                                                                                          <  1:346327/200‑1 (MQ=255)                                                                                                                                                                                                                      aaTTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTACAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATCCTCGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATAgtgt                                  >  1:457254/1‑250 (MQ=255)                                                                                                                                                                                                                         tGATTAAAAATAGTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCTTCGTTGCCCGGCAACATGGTGTagc                               <  2:187635/250‑1 (MQ=255)                                                                                                                                                                                                                                    atttattGTTCATTATCCGTTATTAGACTGGCCAACTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTAAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGAAGCAGCCAGCCAGtt                   >  1:383699/1‑251 (MQ=255)                                                                                                                                                                                                                                      ttattGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCCATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGAACGCAATTGTTCAGCCGAGCTTTGAACCGGGGATGACGGCCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGACAGTTAt                 >  1:44275/1‑251 (MQ=255)                                                                                                                                                                                                                                      ttattGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTAt                 >  1:431528/1‑251 (MQ=38)                                                                                                                                                                                                                                      ttattGTTCATTATCCGTTAGTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAAGACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTa                  <  2:333077/250‑1 (MQ=37)                                                                                                                                                                                                                                                 tATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGCGt      >  2:223248/1‑251 (MQ=33)                                                                                                                                                                                                                                                     cGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGCGTAAGc  >  1:86212/1‑251 (MQ=31)                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                     TTCAACAATACCAACAGCTATCAGGAACTGAATTTCAAAGCTCGTATGGAATCCCCAAGCAAAGATGCCACCCCGGGCAACGTTTACGCTCAGGCTGACTACAAGATTGCTTACGAGTAATCGCATTTGGCCGGGTTCGCCCGGCCACATCATTAACGGATTAATGATAAGTGGATCAGATGTATAAAAAATTAAAATTAACCACAATAAGCGAATTGATTAAAAATATTTATTGTTCATTATCCGTTATTAGACTGGCCCCCTGAATCTCCAGACAACCAATATCACTTAAATAAGTGATAGTCTTAATACTAGTTTTTAGACTAGTCATTGGAGAACAGATGATTGATGTCTTAGGGCCGGAGAAACGCAGACGGCGTACCACACAGGAAAAGATCGCAATTGTTCAGCAGAGCTTTGAACCGGGGATGACGGTCTCCCTCGTTGCCCGGCAACATGGTGTAGCAGCCAGCCAGTTATTTCTCTGGCGTAAGC  >  NC_000913/3185846‑3186340

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ 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.