New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	802131 =	110 (0.880)	6 (0.050)	5/236	NT	5.7%	intergenic (+372/+252)	USA300HOU_RS03915/USA300HOU_RS03920	Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase
	?	USA300TCH1516_ALE	802180 =	97 (0.850)					intergenic (+421/+203)	USA300HOU_RS03915/USA300HOU_RS03920	Putative 5'(3')‑deoxyribonucleotidase/Putative lipid kinase

GTTTCAAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/802279‑802131 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcatccgatttTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATAAGGTG  >  USA300TCH1516_ALE/802180‑802319                                                                                                                                                                                                                                                                                                   GTTTCAAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGTTTAACACATTCA                                                                                                                                                      >  3:413839/1‑141  TTTCAAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTACTCTGCCATAGATTAACACATTCAT                                                                                                                                                     >  4:69052/1‑141  TTTCAAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCAT                                                                                                                                                     >  1:452069/1‑141  TTTCAAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCAT                                                                                                                                                     <  3:377824/141‑1  TTTCAAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGAAGACGTGTAATCTGCCATAGATTAACACATTCAT                                                                                                                                                     >  1:913880/1‑141   TTCAAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATC                                                                                                                                                    <  1:805062/141‑1      AAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGA                                                                                                                                                 >  2:637735/1‑141       AAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGAT                                                                                                                                                >  2:201995/1‑141       AAAACAGACATATAATTTTGACGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATACTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCCTCCGAT                                                                                                                                                <  4:206910/141‑1        AAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATT                                                                                                                                               >  1:447906/1‑141        AAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATT                                                                                                                                               <  2:698603/141‑1         AACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATGGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTT                                                                                                                                              >  1:23186/1‑141         AACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTT                                                                                                                                              <  1:566662/141‑1         AACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTT                                                                                                                                              <  3:308645/141‑1         AACAAAAATATAATTTTAGAGCATGCCACTAAAATGATTGATATTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTAAAAAAAAAAAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTT                                                                                                                                              <  2:497399/141‑1                                                                                             TCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATA                                                          >  2:821865/1‑141                                                                                                        TCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTT                                               >  4:430736/1‑141                                                                                                          GGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGA                                             >  2:152864/1‑141                                                                                                          GGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTT                                                <  3:57230/138‑1                                                                                                          GGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTT                                                >  4:57230/1‑138                                                                                                                CGTGTAATCTGCCATAGATTAACACATTCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGG                                       >  4:452673/1‑141                                                                                                                                           TCATCCGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGA            <  3:333043/141‑1                                                                                                                                                CGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATA       >  1:430966/1‑141                                                                                                                                                CGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATA       <  4:344788/141‑1                                                                                                                                                CGATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATA       >  1:317072/1‑141                                                                                                                                                  ATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAGAAACGAATATAAG     >  2:540071/1‑141                                                                                                                                                  ATTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATAAG     <  4:197519/141‑1                                                                                                                                                   TTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATAAGG    >  2:938578/1‑141                                                                                                                                                   TTTTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATAAGG    >  2:743613/1‑141                                                                                                                                                   TTTTTTATAGAATTTAAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATAAGG    >  3:151126/1‑141                                                                                                                                                     TTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATAAGGTG  <  3:412994/141‑1                                                                                                                                                                                                                                                                                                   GTTTCAAAAACAGACATATAATTTTGGCGCATGCCACTAAAATGATTGATGTTGTATTTTAAATCATAGTGGTTTATGCGTCTTTTTCAAATTCTATAAAAAATCGGATGACGTGTAATCTGCCATAGATTAACACATTCATCCGATTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  USA300TCH1516_ALE/802279‑802131 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcatccgatttTTTATAGAATTTGAAAAAGACGCATAAACCACTATGATTTAAAATACAACATCAATCATTTTAGTGGCATGCGCCAAAATTATATGTCTGTTTTTGAAACAGGGTAATAGCTTAAAGCTAATAAAAACGAATATAAGGTG  >  USA300TCH1516_ALE/802180‑802319

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