New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	USA300TCH1516_ALE	2388283 =	34 (1.120)	3 (0.110)	3/224	NT	10.3%	intergenic (+18/+84)	ribZ_1/sarV	Riboflavin transporter RibZ/HTH‑type transcriptional regulator SarV
	?	USA300TCH1516_ALE	2388362 =	23 (0.870)					intergenic (+97/+5)	ribZ_1/sarV	Riboflavin transporter RibZ/HTH‑type transcriptional regulator SarV

TATTTACTCATATGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAAT  >  USA300TCH1516_ALE/2388144‑2388418                                                                                                                                            |                                                                                                                                        tATTTACTCATATGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAAt                                                                                                                                         <  1:52747/140‑1 (MQ=255)      aCTCATATGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATaaaaa                                                                                                                                    >  1:331548/1‑140 (MQ=255)         cATATGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAAGCATTACTATGCTTGTTTACTCCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCa                                                                                                                                 >  2:23595/1‑140 (MQ=255)           tatGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATg                                                                                                                               <  1:43117/140‑1 (MQ=255)             tGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGCCGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGcc                                                                                                                             >  1:73047/1‑140 (MQ=255)               ttttCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCaa                                                                                                                           >  1:308669/1‑140 (MQ=255)                tttctaaattgcgttctgaaacggatgaaagacaagtattctatttctatagtacttctcaaaagaaattgttagataaaattactaaagaaatagaagtgttaagcgttacaaactaaaaactTAAAAAGCATTCCAAt                                                                                                                          <  2:312065‑M1/16‑1 (MQ=255)                 ttctaaattgcgttctgaaacggatgaaagacaagtattctatttctatagtacttctcaaaagaaaatgttacaaaaaatgactaaagaaatagaagtgttaagcgttacaaactaaaaactTAAAAAGCATGCCAAtc                                                                                                                         >  1:48903‑M1/124‑140 (MQ=255)                   cATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAAtctc                                                                                                                       >  2:299841/1‑140 (MQ=255)                       taGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAAACTCTAtt                                                                                                                   >  2:187731/1‑140 (MQ=255)                        aGTGAAATCTTCGGCTTTATGGTCTCTTTATCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATtc                                                                                                                  <  2:73047/140‑1 (MQ=255)                              aTCTTCGGCTTTATTGCCGCTTTAGTAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCAtt                                                                                                            <  1:104755/140‑1 (MQ=255)                                  tCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATGCATCATTtgtc                                                                                                        >  1:312065/1‑140 (MQ=255)                                  tCGGCTTTACGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTtgtc                                                                                                        >  1:199485/1‑140 (MQ=255)                                       tttATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTcc                                                                                                   <  2:338523/140‑1 (MQ=255)                                                              ctatagtacttctcaaaagaaattgttagataaaattactaaagaaatagaagtgttaagcgttacaaactaaaaactTAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACt                                                                            >  1:149714‑M1/79‑140 (MQ=255)                                                                      ttGTTTACTTTTTAATTCATGGATCTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATCCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCa                                                                    <  1:31836/140‑1 (MQ=255)                                                                      ttGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCa                                                                    >  2:247900/1‑140 (MQ=255)                                                                             cttcttAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCtttt                                                             >  2:169144/1‑140 (MQ=255)                                                                                   aaTTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGtt                                                       >  1:226702/1‑140 (MQ=255)                                                                                     tgttagataaaattactaaagaaatagaagtgttaagcgttacaaactaaaaactTAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGtttt                                                     <  2:180307‑M1/85‑1 (MQ=255)                                                                                             cGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGGATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGt                                             >  1:237155/1‑140 (MQ=255)                                                                                              gTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTa                                            <  1:141211/140‑1 (MQ=255)                                                                                              gTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTa                                            <  1:290591/140‑1 (MQ=255)                                                                                                cATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAAc                                          >  2:107382/1‑140 (MQ=255)                                                                                                 aTGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACg                                         >  1:325031/1‑140 (MQ=255)                                                                                                  tGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGc                                        <  2:199485/140‑1 (MQ=255)                                                                                                   gTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCt                                       >  1:125990/1‑140 (MQ=255)                                                                                                        tAGAAATGCGATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAaca                                  <  1:341261/140‑1 (MQ=255)                                                                                                          gAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCCAGACGCGATTATGATGTACTGCTTGGCATGCTTTTTTAGTTTTTAGTTTGTAACGCTTAACACt                                >  1:158473/1‑140 (MQ=255)                                                                                                          gAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTATGTCCCCAAGACGCAATTATCATGTAGTATTTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACt                                >  2:37411/1‑140 (MQ=255)                                                                                                                  aTGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTc                        >  2:329005/1‑140 (MQ=255)                                                                                                                  aTGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTCTTCGTTTGTAACGCTTAACACTTCTATTTc                        >  2:43693/1‑140 (MQ=255)                                                                                                                        tAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGt                  >  1:22620/1‑140 (MQ=255)                                                                                                                         aaaTATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTa                 >  1:319011/1‑140 (MQ=255)                                                                                                                         aaaTATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTa                 >  1:302051/1‑140 (MQ=255)                                                                                                                           atatTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAAt               <  1:247900/140‑1 (MQ=255)                                                                                                                             atTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAAttt             >  2:165819/1‑140 (MQ=255)                                                                                                                                    ttCAAAAATAAAAAGCATTCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTaa      <  2:272557/140‑1 (MQ=255)                                                                                                                                      aaaactTAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACa    >  1:180307‑M1/7‑140 (MQ=255)                                                                                                                                       aaaaaTAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACaa   <  1:299841/140‑1 (MQ=255)                                                                                                                                        aaaaTAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAAt  <  2:311151/140‑1 (MQ=255)                                                                                                                                            |                                                                                                                                        TATTTACTCATATGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAAT  >  USA300TCH1516_ALE/2388144‑2388418

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