New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 2857675 =28 (0.820)4 (0.130) 4/258 4.8 10.8% coding (90/96 nt) USA300HOU_2700 hypothetical protein
?CP000730 2857737 = 40 (1.260)coding (28/96 nt) USA300HOU_2700 hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

AGATAAGGCAACTTGTCTTGCAACTACCTTTGTATTGTTGCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGAAGTTAGAGAATTATTT  >  CP000730/2857599‑2857875
                                                                                                                                          |                                                                                                                                          
aGATAAGGCAACTTGTCTTGCAACTACCTTTGTATTGTTGCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTAttt                                                                                                                                          >  1:204233/1‑141 (MQ=255)
     aGGCAACTTGTCTTGCAACTACCTTTGTATTGTTGCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTa                                                                                                                                     >  2:20102/1‑141 (MQ=255)
       gCAACTTGTCTTGCAACTACCTTTGTATTGTTGCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTAAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTAtt                                                                                                                                   <  1:191221/141‑1 (MQ=255)
          aCTTGTCTTGCAACTACCTTTGTATTGTTGCATTTTTAGACACCCTGCACACTTATTCCATTATGCTACGCACTAAGTAAACATATTAAAATTGTTTCATTTAGAGATGACTTCATTTTGAGAGAGTATTTTTCTATTTaa                                                                                                                                >  1:368738/1‑141 (MQ=255)
                cTTGCAACTACCTTTGTATTGTTGCATTTTTTTTTTTTTTTTTCACTTCTTCCATTATGCTACGCTCTCATTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGTGCGTATTTTTCTATTTAAATTGtt                                                                                                                          >  2:126534/1‑140 (MQ=255)
                         aCCTTTGTATTGTTGCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTAtt                                                                                                                        >  2:345886/1‑134 (MQ=255)
                         aCCTTTGTATTGTTGCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTAtt                                                                                                                        <  1:345886/134‑1 (MQ=255)
                                    gttgCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCt                                                                                                      >  2:150576/1‑141 (MQ=255)
                                     ttgCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCtt                                                                                                     >  2:135091/1‑141 (MQ=255)
                                             ttAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAAttt                                                                                             <  1:122699/141‑1 (MQ=255)
                                              tAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTa                                                                                            >  1:30495/1‑141 (MQ=255)
                                                   acCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAAtt                                                                                       <  1:223473/141‑1 (MQ=255)
                                                        gCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGt                                                                                  <  1:123477/141‑1 (MQ=255)
                                                             cttcttCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTc                                                                             <  2:46499/141‑1 (MQ=255)
                                                                cttcCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGt                                                                          >  2:247662/1‑141 (MQ=255)
                                                                      ttATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTaaaa                                                                    >  1:85348/1‑141 (MQ=255)
                                                                       tATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAAt                                                                   >  1:289599/1‑141 (MQ=255)
                                                                         tGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTACTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAAttt                                                                 <  1:352773/141‑1 (MQ=255)
                                                                            tACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAAt                                                              <  1:351598/141‑1 (MQ=255)
                                                                                ctctCAGTAGTCATCTTTAAATCGTGTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTGAGTATTTCTGTTTAAAAGTTAATtata                                                          <  2:226678/141‑1 (MQ=255)
                                                                                   tgagtagtCATCTTTAAATCGTTTCTTTTAGAGAGGACTTCATATTGAGAGCTTATTTTTCTATTGAAAATGTATTTATCCAACATTCAATGCTTTCGAACTCAAAATTTCAGTATTTCTGCTTAAAATTTAATTATAATc                                                       <  2:75653/139‑1 (MQ=255)
                                                                                   tcAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATc                                                       >  2:98068/1‑141 (MQ=255)
                                                                                   tcAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATc                                                       <  1:258407/141‑1 (MQ=255)
                                                                                   tcAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATc                                                       <  2:96044/141‑1 (MQ=255)
                                                                                    cAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCt                                                      >  1:318192/1‑141 (MQ=255)
                                                                                     agtagtCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCtt                                                     >  2:291625/1‑141 (MQ=255)
                                                                                          tCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATa                                                >  2:344270/1‑141 (MQ=255)
                                                                                          tCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATa                                                >  1:22790/1‑141 (MQ=255)
                                                                                            aTCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACa                                              <  1:299748/141‑1 (MQ=255)
                                                                                               tttAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACagga                                           <  2:339815/141‑1 (MQ=255)
                                                                                                   aaTCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGgcg                                       >  1:364854/1‑141 (MQ=255)
                                                                                                   aaTCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGgcg                                       >  2:155693/1‑141 (MQ=255)
                                                                                                   aaTCGTTTCTTTTAGAGATAACTTCATTTCGAGAGAGTATTTTTTTGTTTAAAATCTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTCAATTTTACTTGTAATCTTTacaaaagagggcc                                       >  2:266941/1‑129 (MQ=255)
                                                                                                    aTCGTTTCTTTTATAGATTACTGCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCTAATTTAAATTTGCATTATTTCTGTTTAAAATTTAATGATAATCTTTAATACAGGAGgcgc                                      <  2:368738/141‑1 (MQ=255)
                                                                                                    aTCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGgcgc                                      <  1:262357/141‑1 (MQ=255)
                                                                                                    aTCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGgcgc                                      <  1:156065/141‑1 (MQ=255)
                                                                                                             tttAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTAt                             >  1:9663/1‑141 (MQ=255)
                                                                                                               tAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGa                           <  2:85348/141‑1 (MQ=255)
                                                                                                                  agaTGAATTTATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGTTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAata                        >  2:131489/1‑141 (MQ=255)
                                                                                                                        cTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGa                  >  2:306827/1‑141 (MQ=255)
                                                                                                                                 gagaGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGAAGTTAgaga         >  1:239081/1‑141 (MQ=255)
                                                                                                                                  agagCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCTAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGATGCGCTATGCTTATGAATATTACGAAGTTAGAGaa        >  2:340053/1‑141 (MQ=255)
                                                                                                                                   gagCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGAAGTTAGAGAat       >  1:105650/1‑141 (MQ=255)
                                                                                                                                        tATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGAAGTTAGAGAATTAttt  <  1:173197/141‑1 (MQ=255)
                                                                                                                                        tATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGAAGTTAGAGAATTAttt  <  1:315662/141‑1 (MQ=255)
                                                                                                                                        tATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGAAGTTAGAGAATTAttt  <  1:30442/141‑1 (MQ=255)
                                                                                                                                        tATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGAAGTTAGAGAATTAttt  <  1:98068/141‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                          
AGATAAGGCAACTTGTCTTGCAACTACCTTTGTATTGTTGCATTTTTAGACACCCTGCACACTTCTTCCATTATGCTACGCTCTCAGTAGTCATCTTTAAATCGTTTCTTTTAGAGATGACTTCATTTTGAGAGCGTATTTTTCTATTTAAAATGTATTTATCCAAAATTCAATGCTTTCGAATTTAAAATTTCAGTATTTCTGTTTAAAATTTAATTATAATCTTTAATACAGGAGGCGCTATGCTTATGAATATTGCGAAGTTAGAGAATTATTT  >  CP000730/2857599‑2857875

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ 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.