New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP000730	904166 =	39 (0.940)	3 (0.080)	3/230	NT	7.8%	intergenic (+441/‑230)	USA300HOU_0861/USA300HOU_0862	possible DNA primase/hypothetical protein
	?	CP000730	904273 =	36 (0.970)					intergenic (+548/‑123)	USA300HOU_0861/USA300HOU_0862	possible DNA primase/hypothetical protein

CTTTCATATTAGTCTTTTTGACAAAAAGTTACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTAGAGTAACATGAATAGAAATAGAAT  >  CP000730/904139‑904412                                                                                                                                       |                                                                                                                                            cTTTCATATTAGTCTTTTTGACAAAAAGTTACTGAGTTACTATAAATTATTTCATTTTATTTAAAATGTATAATTTAGAATTAAGGTCATAAAAGTTTATATAAAATATCGTCAATTTTCAGTAACACAGTAAGTAACaac                                                                                                                                       >  2:490841/1‑139 (MQ=255)          tAGTCTTTTTGACAAAAAGTTACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCtgtatgta                                                                                                                              <  1:123382/141‑1 (MQ=255)            gTCTTTTTGACAAAAAGTTACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTAtt                                                                                                                            <  1:320328/141‑1 (MQ=255)              cTTTTTGACAAAAAGTTACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGa                                                                                                                          <  1:314698/141‑1 (MQ=255)               tttttGACAAAAAGTTACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGAc                                                                                                                         >  1:50023/1‑141 (MQ=255)                       aaaaaGTTACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACtgt                                                                                                                 <  1:270078/141‑1 (MQ=255)                              TACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACa                                                                                                          <  1:399700‑M1/141‑1 (MQ=255)                              TACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACa                                                                                                          >  2:222635‑M1/1‑141 (MQ=255)                                CTGAGCTACTATAAATTATTTCTTCTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTTAATTTTCAGTAACTCAGTAACCAACAGCCTGTACGTATTAACATCCCTGTGTTTACAGt                                                                                                        <  2:277197‑M1/141‑1 (MQ=255)                                 tgagttactgaaaattcacggtattttatataatcttttattaccttaattctctattatacatttctactaaaaagaaataatttatagtaactcagtaacCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTg                                                                                                       >  1:210101‑M2/103‑141 (MQ=255)                                 TGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTg                                                                                                       >  1:14587‑M1/1‑141 (MQ=255)                                  gagttactgaaaattcacggtattttatataatcttttattaccttaattctctattatacatttctactaaaaagaaataatttatagtaactcagtaacCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTgg                                                                                                      >  2:197701‑M2/102‑141 (MQ=255)                                    GTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGtt                                                                                                    >  2:335283‑M1/1‑141 (MQ=255)                                     ttactgaaaattcacggtattttatataatcttttattaccttaattctctattatacatttctactaaaaagaaataatttatagtaactcagtaacCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTa                                                                                                   >  1:305947‑M2/99‑141 (MQ=255)                                     TTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTa                                                                                                   >  2:278941‑M1/1‑141 (MQ=255)                                      TACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTAt                                                                                                  >  1:483450‑M1/1‑141 (MQ=255)                                             aaTTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGaaaaa                                                                                           >  1:238277/1‑141 (MQ=255)                                             aaTTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGaaaaa                                                                                           >  2:57796/1‑141 (MQ=255)                                                  tttCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATaa                                                                                      >  1:394409/1‑141 (MQ=255)                                                        tttAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAg                                                                                <  1:311915/141‑1 (MQ=255)                                                        tttAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAg                                                                                <  1:431188/141‑1 (MQ=255)                                                        tttAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAg                                                                                <  2:313173/141‑1 (MQ=255)                                                            gtagAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGt                                                                            <  2:217969/141‑1 (MQ=255)                                                                aaaTGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGttttt                                                                        >  1:79782/1‑141 (MQ=255)                                                                 aaTGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTa                                                                       <  2:267473/141‑1 (MQ=255)                                                                    gTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTa                                                                    <  1:236487/141‑1 (MQ=255)                                                                    gTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTa                                                                    >  1:347039/1‑141 (MQ=255)                                                                      ataataGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGttttttaggtg                                                                  >  2:219944/1‑135 (MQ=255)                                                                          taGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAAc                                                              <  1:46041/141‑1 (MQ=255)                                                                           agagAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACg                                                             <  1:493064/141‑1 (MQ=255)                                                                           agagAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACg                                                             <  2:153893/141‑1 (MQ=255)                                                                            gagaATTAAGATAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGt                                                            <  2:478189/141‑1 (MQ=255)                                                                               aaTTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGt                                                         <  2:90402/141‑1 (MQ=255)                                                                                    aGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCtt                                                    <  1:91015/141‑1 (MQ=255)                                                                                     ggTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCttt                                                   >  2:21665/1‑141 (MQ=255)                                                                                       taataaAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAg                                                 <  2:21365/141‑1 (MQ=255)                                                                                               gATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGa                                         <  1:12122/141‑1 (MQ=255)                                                                                               gATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGa                                         <  2:448672/141‑1 (MQ=255)                                                                                                aTTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGAt                                        <  1:390175/141‑1 (MQ=255)                                                                                                 ttATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATa                                       >  2:281399/1‑141 (MQ=255)                                                                                                   atataAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGa                                     >  1:51112/1‑141 (MQ=255)                                                                                                      taAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTg                                  >  1:126479/1‑141 (MQ=255)                                                                                                             ccGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACt                           <  2:12055/141‑1 (MQ=255)                                                                                                              cGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGAAGGACTa                          >  1:456092/1‑141 (MQ=255)                                                                                                               gTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTag                         >  1:183109/1‑141 (MQ=255)                                                                                                                 gAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTagag                       <  1:199395/141‑1 (MQ=255)                                                                                                                 gAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTagag                       >  2:69112/1‑141 (MQ=255)                                                                                                                              ctcagtaacCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGGCTAGAGTAACATGaataga          <  1:263778‑M2/132‑1 (MQ=255)                                                                                                                                 agtaacCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTAGAGTAACATGaatagaaat       <  2:356288‑M2/135‑1 (MQ=255)                                                                                                                                   taacCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTAGAGTAACATGaatagaaatag     >  1:285814‑M2/5‑141 (MQ=255)                                                                                                                                      cCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTAGAGTAACATGAATAGAAATAGAAt  <  2:142271‑M2/140‑1 (MQ=255)                                                                                                                                      cCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTAGAGTAACATGAATAGAAATAGAAt  >  2:257003‑M2/2‑141 (MQ=255)                                                                                                                                       |                                                                                                                                            CTTTCATATTAGTCTTTTTGACAAAAAGTTACTGAGTTACTATAAATTATTTCTTTTTAGTAGAAATGTATAATAGAGAATTAAGGTAATAAAAGATTATATAAAATACCGTGAATTTTCAGTAACTCAGTAACCAACAGCCTGTATGTATTGACATCACTGTGTTTACAGTGGTTATTGAAAAACATAAATTCAGTGGTTTTTAGTATCTAACGTGGTTGCTTTAGTAACTGGATAGATTGGAGGACTAGAGTAACATGAATAGAAATAGAAT  >  CP000730/904139‑904412

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.