New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	= 800928	35 (0.780)	3 (0.070)	3/244	NT	7.0%	intergenic (+62/‑289)	hisC_1/USA300HOU_RS03915	Histidinol‑phosphate aminotransferase/Putative 5'(3')‑deoxyribonucleotidase
	?	USA300TCH1516_ALE	801948 =	47 (1.110)					intergenic (+189/+435)	USA300HOU_RS03915/USA300HOU_RS03920	Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase

GGTGTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCAATATAACTTTGTAG  >  USA300TCH1516_ALE/800789‑801061                                                                                                                                            |                                                                                                                                      tgttttagaaTTACAATTTGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAATTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAAC                                                                                                                                       <  2:78885‑M1/136‑1 (MQ=255)  gtgtTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACa                                                                                                                                      >  2:484792‑M1/1‑139 (MQ=255)                 ttGGTTTTAAAGCACAAAATGATACAATGTTAGAAGTTTTATCAAAATTTACTGCCGAGTAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGa                                                                                                                       <  1:106933/140‑1 (MQ=21)                 ttGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCATCTTGCATTGTCTGTAGa                                                                                                                       >  1:536967/1‑140 (MQ=255)                        tAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTCGAGATTggg                                                                                                                >  1:260356/1‑140 (MQ=255)                        tAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTggg                                                                                                                >  1:285126/1‑140 (MQ=255)                        tAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTggg                                                                                                                >  1:386725/1‑140 (MQ=255)                          aaGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACataaagaaatactttttctttagaa                                                                                                              >  2:184903‑M1/1‑115 (MQ=255)                            gAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCGCCCCAACTTGCATTGTCTGTAGCAATTGGGCATc                                                                                                            >  1:83110/1‑140 (MQ=255)                            gAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTCAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTggaacgc                                                                                                            <  2:139696/140‑6 (MQ=255)                              aCAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCTAACTTACATTCTCTGTAGAAATTGGGAATCCa                                                                                                          >  1:32443/1‑140 (MQ=255)                              aCAAAATGATAAAATGTTAGAAGTTTTATCAAACATTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTGCGTCGGCCAACTCCAACTTGCATAGTCTGTAGAAATTGGGAATcaa                                                                                                          >  2:529393/1‑138 (MQ=25)                                aaaaTGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTCGGGAGCGGGAAAGAAATGATACTATCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGCCTGTAAAAATTGGGAATCCaca                                                                                                        >  2:232282/1‑138 (MQ=25)                                                 gAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACataaagaaatactttttctttagaaattagtatttcttatgcatgagt                                                                                       <  1:484792‑M1/140‑49 (MQ=255)                                                 gAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGcc                                                                                       >  1:309930/1‑140 (MQ=255)                                                        tATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCgg                                                                                <  2:432571/140‑1 (MQ=255)                                                         aTCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGc                                                                               >  1:497283/1‑140 (MQ=255)                                                         aTCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGc                                                                               <  2:91138/140‑1 (MQ=255)                                                         aTCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGAATCGTCTCTAGAAACTGAGACTCCCATTTCTCGATGTTGCAGCCCCGCCGGc                                                                               >  2:420398/1‑140 (MQ=18)                                                          tCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCa                                                                              >  1:321739/1‑140 (MQ=255)                                                                       aCGAATAGTAAGTGGGGAGTGGGACAGAAATGATATTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGaa                                                                 <  2:126497/140‑1 (MQ=255)                                                                        cGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACataaagaaatactttttctttagaaattagtatttcttatgcatgagtgtaactcatgcattcatattttt                                                                <  1:372137‑M1/140‑72 (MQ=255)                                                                        cGAATAGGAAGTGGGGGGTGGGACAGAAATGATACTTTCGCAACATTTATTTCGTCGTCCCACCCCAACTTGCAGTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAAt                                                                <  1:243229/140‑1 (MQ=255)                                                                         gAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTGATTTCGTCGTCCCACCCCAACTTGCATTGTCTGGAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAAtt                                                               <  1:230169/140‑1 (MQ=255)                                                                           aTAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGa                                                             <  1:344359/140‑1 (MQ=255)                                                                            tAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGaa                                                            <  2:469416/140‑1 (MQ=255)                                                                                    ggggAGTGGGCAAGCAATGATACTTGCGCAATATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGTCCCGGCCGGCAAGGTTGACTAGAATTGAAAAAAGCtt                                                    <  2:183471/140‑1 (MQ=11)                                                                                       gAGGGGGACAGATATGATACTTTCGGTACAGTTGTTTCGTGGTCCCACGCTAACTTGCATTGTCGGTAGAGATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGtt                                                 <  2:479826/140‑1 (MQ=11)                                                                                            ggACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAACTTGGGAATTCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGCTGACTAGAATTGCAAACAGTTTGCTACAAg                                            >  2:176772/1‑140 (MQ=11)                                                                                             gACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAgc                                           >  1:308541/1‑140 (MQ=40)                                                                                                aGAAATGGTACTTTCGCAAGATTTATTTCTTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCa                                        <  2:548638/140‑1 (MQ=255)                                                                                                     tGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTc                                   >  2:426479/1‑140 (MQ=255)                                                                                                     tGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTc                                   >  2:484004/1‑140 (MQ=255)                                                                                                     tGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTc                                   >  2:11763/1‑140 (MQ=255)                                                                                                                cAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAac                        <  1:339862/140‑1 (MQ=33)                                                                                                                     tttatttCGTCGTCCCACCCCAACTTGCATCGTCTGTAGAAATTGGGAATCCACTTTCTCTTTGTTGGGGCCCCGCCGGCCAGGTTGACTAGAATTGAAAAAAGCTTGTTACACGCGCACTTTACTTCAGTCAactacac                   >  2:421261/1‑138 (MQ=11)                                                                                                                          ttCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACAACTGCCAat              >  2:491691/1‑140 (MQ=18)                                                                                                                              tcgtcCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTGTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGGCAACTACTGCCAATATaa          >  1:227465/1‑140 (MQ=21)                                                                                                                               cgtcCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCAATATAAc         >  2:506366/1‑140 (MQ=34)                                                                                                                                   ccACCCCAACTTGCATTGTCTGTAGAAATTGGGGCTCCGGTTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCAATATAACTTTg     <  2:5515/140‑1 (MQ=255)                                                                                                                                      ccccAACataaagaaatactttttctttagaaattagtatttcttatgcatgagtgtaactcatgcattcatatttttaagtacacattagctgtgactaatgataaagaatcgctacataatcaatcattagtcgttct  <  1:450973‑M1/140‑134 (MQ=255)                                                                                                                                            |                                                                                                                                      GGTGTTAGAATTACAATTGGTTTTAAAGAACAAAATGATAAAATGTTAGAAGTTTTATCAAACTTTAAATACGAATAGTAAGTGGGGAGTGGGACAGAAATGATACTTTCGCAAAATTTATTTCGTCGTCCCACCCCAACTTGCATTGTCTGTAGAAATTGGGAATCCAATTTCTCTTTGTTGGGGCCCCGCCGGCAAGGTTGACTAGAATTGAAAAAAGCTTGTTACAAGCGCATTTTCGTTCAGTCAACTACTGCCAATATAACTTTGTAG  >  USA300TCH1516_ALE/800789‑801061

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.