New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	2085296 =	31 (0.810)	9 (0.260)	9/252	2.5	22.0%	coding (173/201 nt)	hlb_1	Phospholipase C
	?	USA300TCH1516_ALE	= 2128343	36 (1.050)					coding (1/825 nt)	hlb_2	Phospholipase C

TACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAAAAGAA  >  USA300TCH1516_ALE/2128205‑2128483                                                                                                                                           |                                                                                                                                             tACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtg                                                                                                                                            <  2:102750‑M2/141‑3 (MQ=255) tACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtg                                                                                                                                            >  1:330258‑M2/1‑139 (MQ=255) tACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGCTTCTAtg                                                                                                                                            <  2:295990‑M2/141‑3 (MQ=255)  aCATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGCGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATCAATACTGTTGTTACAAGGTTTCTAtgt                                                                                                                                           <  1:148838‑M2/141‑4 (MQ=255)  aCATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGCGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGCGACCCATTAGGGACTCCACACACAATAAATACTGTTGTTACCAGATTTCTAtgt                                                                                                                                           <  2:114940‑M2/141‑4 (MQ=255)  aCATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTATTGTTACAATGTTTCTCtgt                                                                                                                                           <  1:203274‑M2/141‑4 (MQ=255)         tgtATGATCAATTGTAAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaa                                                                                                                                    >  2:363307‑M2/1‑131 (MQ=255)           tATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaact                                                                                                                                  <  1:317769‑M2/141‑13 (MQ=255)                  aTTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGTCa                                                                                                                           >  2:150004/1‑141 (MQ=255)                       ttAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGAGGGCAatcaa                                                                                                                      >  2:400811/1‑138 (MQ=255)                         agaagaAAAATTTAATGAAGAGGACTAAAAAAAAAATAAAATTTTAGAAAGTATGTAATTTAGGTGCACATTAGGTACTCCAAACCCAATAAATACTTTTGTTACTAGTTTTCTAGCTATCCAAAATGAGGGCAATTTaaa                                                                                                                    >  2:39938/1‑141 (MQ=255)                         agaagaAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTCTCCAAACTGGGGGCCATCTaaa                                                                                                                    >  1:33714/1‑141 (MQ=255)                            agaaAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCAAAACTGGGGGCAATATAAAcgc                                                                                                                 >  2:293714/1‑141 (MQ=255)                               aaaaTTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCt                                                                                                              <  1:332433/141‑1 (MQ=255)                                aaaTCTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTg                                                                                                             <  1:96818/141‑1 (MQ=255)                                   tttAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattact                                                                                                          <  1:124801‑M2/141‑37 (MQ=255)                                             agGACAAAAAAACAACTCACAGATGAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaa                                                                                                >  1:275904‑M2/1‑95 (MQ=255)                                                           acTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGAACAATCTTCTTATATTa                                                                                  >  2:279416/1‑141 (MQ=255)                                                            cTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTaa                                                                                 <  1:427757/141‑1 (MQ=255)                                                                aaTTTGAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAaat                                                                             <  1:114940/141‑1 (MQ=255)                                                                       gAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAatgatg                                                                      <  1:308706/141‑1 (MQ=255)                                                                       gAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAatgatg                                                                      <  1:440275/141‑1 (MQ=255)                                                                         aaGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggttt                                                                    >  2:254433‑M2/1‑67 (MQ=255)                                                                           gTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGt                                                                  <  1:114971/141‑1 (MQ=255)                                                                                tAATTTAGGGACTCTCTTGGGACGCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAatat                                                             <  1:165121/141‑1 (MQ=255)                                                                                aactgtAGGGGCCCATTAGGGACTCCAAACCCAATAAATACTGTTGTGACAAGGTTTCTATGAAACCATAATGCTGAATTTATAATCGCGATGATTGAACTGTACAATCTTCTTATATTAAAAATAATGATGTCGTAatat                                                             <  1:325147/136‑1 (MQ=255)                                                                                        ggACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATCATTTGTTCTTAATATttaattaa                                                     >  1:109111/1‑141 (MQ=255)                                                                                          aCCCATTAGGTACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatc                                                   >  2:128857‑M2/1‑50 (MQ=255)                                                                                            ccATTAGGGACTCCAAACCTCATAAATAGTGTTGTTACAAGGTTTCTAtgtatcaaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatctcaaggtttataactttatcattatcaa                                                 >  2:176046‑M2/1‑48 (MQ=255)                                                                                            caaTTAGGGACTTTAAACTCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGTACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCAt                                                 <  2:87374/139‑1 (MQ=255)                                                                                                 aGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACACTCTTCTTATATTAAAAATAATGATAGCGTCATATTCACTGACGCATTTGAt                                            >  2:371617/1‑141 (MQ=255)                                                                                                  gggACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATa                                           >  1:201427/1‑141 (MQ=255)                                                                                                    gACTCTAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAAt                                         <  2:257352/141‑1 (MQ=255)                                                                                                      cTCCAAACCCAATAAACACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGAGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTACCTTCACTATAGTCTTGTTGTTATATTCAATGAAGCATTTGATAATgg                                       <  1:346858/141‑1 (MQ=255)                                                                                                       tCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTACTTCCGTGCAGCTGTGGTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGt                                      >  1:437611/1‑141 (MQ=255)                                                                                                          aaaCCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATAGTTCa                                   >  2:85938/1‑141 (MQ=255)                                                                                                           aaCCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCAt                                  >  2:79310/1‑141 (MQ=255)                                                                                                            aCCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATc                                 >  2:166832/1‑141 (MQ=255)                                                                                                            aCCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTAATAATGTTGCATc                                 >  2:439748/1‑141 (MQ=255)                                                                                                             cacAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCa                                <  2:318655/139‑1 (MQ=255)                                                                                                                 ataaataCTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACa                            <  2:235330/141‑1 (MQ=255)                                                                                                                 agaaataCGGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTCAATCGGACAATCTTCTTATATGAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACa                            <  2:303385/139‑1 (MQ=255)                                                                                                                   aaataCTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattaaaaaggtgttgttttattatatcaaggtttataactttatcattatcaataatacctcatataaaataaaat                          <  1:207666‑M2/141‑117 (MQ=255)                                                                                                                     ataCTGTTGTTACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattt                        <  1:61778‑M2/141‑119 (MQ=255)                                                                                                                              ttACAAGGTTTCTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggactt               >  2:124801‑M2/1‑14 (MQ=255)                                                                                                                                  aaGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAAtgtg           <  1:255664/141‑1 (MQ=255)                                                                                                                                  aaGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAAtgtg           <  1:257785/141‑1 (MQ=255)                                                                                                                                    ggTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGaa         <  1:400811/141‑1 (MQ=255)                                                                                                                                       ttatATGTATCCAAAGTGGGTGAAATATAAACACGCTGATTTAATCGTACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGaaaaa      <  2:78257/138‑1 (MQ=255)                                                                                                                                       ttCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTCTATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACACATTATTAAGTAATGTGaaaga      >  1:105659/1‑139 (MQ=255)                                                                                                                                       ttCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATATTCTTATATTAAAAATAATGATAACGTAGTAGTCAATGAAGCATTTGATAATGGTGCATCAGACAACTTATTAAGTAATATGaaaaa      >  2:266847/1‑141 (MQ=255)                                                                                                                                         cTAtgtatccaaactggagacttttaacataaaattacttatcattcaaaaagtaaaacagcataatatcaaggtttataactttatcattatcaataatacctcatataaaataaaattttagggactttttagggactt    <  1:163975‑M2/141‑139 (MQ=255)                                                                                                                                           aTGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAAAAGaa  >  2:282452/1‑141 (MQ=255)                                                                                                                                           |                                                                                                                                             TACATCCGTGTATTCTCATTTGTTAGAAGAAAAATTTAATGAAGAGGACAAAAAAACAACTAAAATTTTAGAAAGTATGTAATTTAGGGACCCATTAGGGACTCCAAACCCAATAAATACTGTTGTTACAAGGTTTCTATGTATCCAAACTGGGGGCAATATAAACGCGCTGATTTAATCGGACAATCTTCTTATATTAAAAATAATGATGTCGTAATATTCAATGAAGCATTTGATAATGGTGCATCAGACAAATTATTAAGTAATGTGAAAAAAGAA  >  USA300TCH1516_ALE/2128205‑2128483

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.