New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 2082527	103 (1.050)	13 (0.150)	8/142	NT	12.1%	intergenic (+168/+156)	aspC/USA300HOU_RS10520	Aspartate aminotransferase/65 kDa membrane protein
	?	USA300TCH1516_ALE	= 2082556	98 (1.120)					intergenic (+197/+127)	aspC/USA300HOU_RS10520	Aspartate aminotransferase/65 kDa membrane protein

CTTTCAAAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/2082429‑2082527 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaatcggacTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGACA  <  USA300TCH1516_ALE/2082556‑2082467                                                                                                                                                                                               CTTTCAAAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAA                                                                                                    <  1:2506529/91‑1   TTCAAAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAA                                                                                                  >  1:3837955/1‑91    TCAAAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAAT                                                                                                 <  1:2789879/91‑1    TCAAAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAAT                                                                                                 <  1:884436/91‑1    TCAAAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAAT                                                                                                 <  1:1471191/91‑1       AAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGG                                                                                              >  1:2204578/1‑91       AAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGG                                                                                              >  1:2204006/1‑91        AGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGA                                                                                             >  1:897876/1‑91                                        GTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGT                                                             <  1:1199495/91‑1                                        GTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGT                                                             <  1:2578274/91‑1                                         TCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTC                                                            <  1:1714088/91‑1                                         TCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTC                                                            <  1:3366970/91‑1                                         TCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTC                                                            <  1:2632747/91‑1                                          CAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCC                                                           <  1:1561017/91‑1                                            AACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGA                                                         <  1:627878/91‑1                                             ACACTATACTTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGAT                                                        <  1:3973657/91‑1                                             ACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGAT                                                        <  1:1832018/91‑1                                              CACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATT                                                       <  1:2633658/91‑1                                                   TACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTG                                                  <  1:2824401/91‑1                                                   TACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTG                                                  <  1:2824438/91‑1                                                     CCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGACAGAT‑‑AAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTT                                              <  1:228406/91‑1                                                                                           AAATCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGT          >  1:3922835/1‑91                                                                                              TCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTT       >  1:2298300/1‑91                                                                                              TCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTT       >  1:3016043/1‑91                                                                                              TCGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTT       >  1:3165817/1‑91                                                                                               CGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTT      <  1:1526408/91‑1                                                                                               CGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTT      <  1:1526409/91‑1                                                                                               CGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTT      >  1:3040846/1‑91                                                                                               CGGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTT      >  1:2229774/1‑91                                                                                                GGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTG     <  1:783589/91‑1                                                                                                GGACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTG     >  1:848241/1‑91                                                                                                 GACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGA    <  1:2345016/91‑1                                                                                                 GACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGA    <  1:2524805/91‑1                                                                                                 GACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGA    <  1:2524431/91‑1                                                                                                  ACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGAC   >  1:957263/1‑91                                                                                                  ACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGAC   >  1:774728/1‑91                                                                                                  ACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGAC   >  1:1963768/1‑91                                                                                                  ACTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGAC   <  1:1275053/91‑1                                                                                                   CTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGACA  >  1:1067154/1‑91                                                                                                   CTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGACA  >  1:1066208/1‑91                                                                                                                                                                                               CTTTCAAAGTATCATAAGATATATTTTATTCAGCAACTTGTCAAACACTATACCTAATTAGTTTTATACATCTCTCCTAACAAAATCAAAAAATCGGAC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  USA300TCH1516_ALE/2082429‑2082527 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑aaatcggacTGATAGAAAAAGTTTTTTACTTTTCATCTGTCCGATTTTTTGATTTTGTTAGGAGAGATGTATAAAACTAATTAGGTATAGTGTTTGACA  <  USA300TCH1516_ALE/2082556‑2082467

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