New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	99262 =	41 (1.110)	2 (0.060)	4/230	NT	5.4%	intergenic (+56/+16)	tfoX/USA300HOU_0099	hypothetical protein/possible MFS family major facilitator transporter
	?	CP000730	99291 =	34 (1.030)					coding (1208/1221 nt)	USA300HOU_0099	possible MFS family major facilitator transporter

TTTTTAGGAAGATGGATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACCGTCACTCTTCTTTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/99415‑99262 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gtcactcttctttaTGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGTAACAAATATGAGTAAGGATAAAATGAGTATAATATAGAAACCGAATTTATCATTAATTTCATTAATCCATCTTCCTAAAAATGGAGCAATTA  >  CP000730/99291‑99426                                                                                                                                                                                                                                                                                                    TTTTTAGGAAGATGGATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACCG                                                                                                                                                       >  1:419975/1‑141    TTAGGAAGATGGATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACGGTCA                                                                                                                                                    <  2:388305/141‑1      AGGAAGATGGATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACGGTCACT                                                                                                                                                  >  2:220552/1‑141      AGGAAGATGGATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACCGTCACT                                                                                                                                                  >  1:230678/1‑141       gtAAGATGTGTTAATGAAATTGATGATAAATTCGGTTTCTATATTATACTCTTTTTTTCCTTACACATATTTATTACACTGCTGCTTGGTAACAAAACAAGCAAAATAAAATATGCACATAAAGAAGAGTGACGGTCACTC                                                                                                                                                 <  2:141775/139‑1       GGAAGATGGATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACCGTCACTC                                                                                                                                                 <  2:78595/141‑1       GGAAGATGAATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTCTTACACTGCTGCTTGTTAACAAAACGGGCAAAATAAAATATGCACATAAAGAAGAGTGACCGTCACTC                                                                                                                                                 <  2:249635/141‑1           GATGAATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAATATAAAATATGCACATAAAGAAGAGTGACCGTCACTCTTCT                                                                                                                                             <  1:146703/141‑1              GGATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACCGTCACTCTTCTTTA                                                                                                                                          <  2:239411/141‑1                                                          ATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACGGTCACTCTTCTTTATGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGT                                                                                              <  1:199985/141‑1                                                                TCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACGGTCACTCTTCTTTATGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGTAACAAA                                                                                        <  1:220552/141‑1                                                                                                         AGGCAAAATAAAATATGCACATAAAGAAGAGTGACCGTCACTC                                                                                                                                                 <  1:339089/43‑1                                                                                                         AGGCAAAATAAAATATGCACATAAAGAAGAGTGACCGTCACTC                                                                                                                                                 >  2:339089/1‑43                                                                                                                                          ACCGTCACTCTTCTTTCTGTGCATATTTTGTTTTGCCTGTTTTGTTAACAAGCAGCAGTATAACAAATATTATTAAGGATAAAATGATTATAATATAGAAACTGAATTTATCATTAATTTCATTAATCCATCTTCCTAAAA              >  2:384665/1‑141                                                                                                                                          ACCGTCACTCTTCTTTATGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGTAACAAATATGAGTAAGGATAAAATGAGTATAATATAGAAACCGAATTTATCATTAATTTCATTAATCCATCTTCCTAAAA              >  1:116468/1‑141                                                                                                                                          ACCGTCACTCTTCTTTATGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGTAACAAATATGAGTAAGGATAAAATGAGTATAATATAGAAACCGAATTTATCATTAATTTCATTAATCCATCTTCCTAAAA              >  1:40621/1‑141                                                                                                                                                ACTCTTCTTTATGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGTAACAAATATGAGTAAGGATAAAATGAGTATAATATAGAAACCGAATTTATCATTAATTTCATTAATCCATCTTCCTAAAAATGGAG        >  2:134382/1‑141                                                                                                                                                 CTCTTCTTTATGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGTAACAAATATGAGTAAGGATAAAATGAGTATAATATAGAAACCGAATTTATCATTAATTTCATTAATCCATCTTCCTAAAAATGGAGC       <  1:203879/141‑1                                                                                                                                                      CTTTATGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGTAACAAATATGAGTAAGGATAAAATGAGTATAATATAGAAACCGAATTTATCATTAATTTCATTAATCCATCTTCCTAAAAATGGAGCAATTA  <  1:409325/141‑1                                                                                                                                                                                                                                                                                                    TTTTTAGGAAGATGGATTAATGAAATTAATGATAAATTCGGTTTCTATATTATACTCATTTTATCCTTACTCATATTTGTTACACTGCTGCTTGTTAACAAAACAGGCAAAATAAAATATGCACATAAAGAAGAGTGACCGTCACTCTTCTTTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000730/99415‑99262 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gtcactcttctttaTGTGCATATTTTATTTTGCCTGTTTTGTTAACAAGCAGCAGTGTAACAAATATGAGTAAGGATAAAATGAGTATAATATAGAAACCGAATTTATCATTAATTTCATTAATCCATCTTCCTAAAAATGGAGCAATTA  >  CP000730/99291‑99426

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ 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.