New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 2388283 =35 (1.140)3 (0.110) 3/224 NT 10.1% intergenic (+18/+84) USA300HOU_2247/USA300HOU_2248 MFS family major facilitator transporter/hypothetical protein
?CP000730 2388362 = 23 (0.860)intergenic (+97/+5) USA300HOU_2247/USA300HOU_2248 MFS family major facilitator transporter/hypothetical protein

TATTTACTCATATGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCAAGACGCAATTATGATGTACTGATTGGCATGCTTTTTAAGTTTTTAGTTTGTAACGCTTAACACTTCTATTTCTTTAGTAATTTTATCTAACAAT  >  CP000730/2388144‑2388418
                                                                                                                                           |                                                                                                                                       
tATTTACTCATATGTTTTCATATAGTGAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAAt                                                                                                                                         <  1:52747/140‑1 (MQ=255)
 atttgatattatGTTTTCATATAGTAAAATCTTCGGCTTTATGGCCGCTTTAGCAATCATTACTATGCTTGTTTACTTCTTAATTCATGGACGTCATGTAACTAGAAATGCCATGAACTAAATATTTATATTCAAAAATa                                                                                                                                        <  2:22425/131‑1 (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)
                                                                                ttAATTCATGGACGTCATGTAACTAGAACTGCCATGAACTACATATTTATATTCAAACATAAAAAGCATGCCAATCTCTATTCATCATTTGTCTGTCCCCCAGACGCATTTATAATCTCCTGCTTGACAtcccgttttac                                                         >  2:335867/1‑130 (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  >  CP000730/2388144‑2388418

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.