New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 512620 =22 (0.690)20 (0.910)
+TTATCTTGTCCATTTTATTTTTTAACCAAAATTTGATTAA
15/180 NT 56.9% intergenic (+688/‑173) recR/rrs1 recombination protein RecR/16S ribosomal RNA
?CP000730 1998278 = NA (NA)intergenic (‑6/+5) USA300HOU_t0050/rrf4 tRNA‑Val/5S ribosomal RNA

CAAGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAATTTA  >  CP000730/1998146‑1998415
                                                                                                                                    |                                                                                                                                         
cAAGTCAGTTTCTCGACCAATTGAGCCAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGcc                                                                                                                                   <  2:284740/141‑1 (MQ=255)
    tCAGTTGCTCTGCCAATTGCGCTAGGCCGGCAATATGTAAGAATAAATGGTGCAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGc                                                                                                                               <  2:361306/141‑1 (MQ=255)
                    ttGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGc                                                                                                               <  1:318541/141‑1 (MQ=255)
                    ttGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGc                                                                                                               <  1:221326/141‑1 (MQ=255)
                           aGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCATAACTTATCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGt                                                                                                        >  1:277756/1‑141 (MQ=18)
                            ggCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTa                                                                                                       <  2:173760/141‑1 (MQ=255)
                                 gCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGCCCCTCTGCTTGTAAGGCAGATGCGCTCCTAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTc                                                                                                  <  2:41544/141‑1 (MQ=255)
                                 gCAAGATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTc                                                                                                  <  1:187183/141‑1 (MQ=255)
                                   aaTATGTAAGAATAGATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGa                                                                                                >  1:210656/1‑141 (MQ=255)
                                    atatGTAAGAAGAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGAc                                                                                               <  1:270255/141‑1 (MQ=255)
                                     tatGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACt                                                                                              >  1:207107/1‑141 (MQ=255)
                                       tGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTAc                                                                                            <  1:204766/141‑1 (MQ=255)
                                        gTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTCCGACTAcc                                                                                           >  1:162682/1‑141 (MQ=255)
                                         tAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCa                                                                                          >  1:61835/1‑141 (MQ=255)
                                                aaaTGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTTAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGc                                                                                   >  2:222346/1‑141 (MQ=255)
                                                  aTGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTa                                                                                 >  2:149277/1‑141 (MQ=255)
                                                      tggAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGATCGACTACCATcgccgcactggc                                                                             >  2:228587/1‑135 (MQ=255)
                                                          gaATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCtt                                                                         <  2:56431/141‑1 (MQ=255)
                                                          gaATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCtt                                                                         >  2:312580/1‑141 (MQ=255)
                                                               cccgcttCCAACCGCCGACCCTCTGCTGTTAAGGAAGCTGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAACCTGCCTGGCAACGTTCTACTCACGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACtt                                                                    <  2:287706/136‑1 (MQ=14)
                                                                 ttttacGAGCCGCCGACCCTCTGCGTGTAGGGCAGATGCTCTCACAGCTGAGCTAAATCTCCGATTTAAAACTGCCTGGCAACGTTCTCCTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCt                                                                  <  2:166308/136‑1 (MQ=14)
                                                                 gggTTCCAACCGCCCACCCTCTGCGTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAATCTGCCTGGCAACTTTCTACTCGAGCGGAACGTTAGTTCGACTACCATCGACGCTAAGGAGCTTCactact                                                                  <  2:160785/141‑1 (MQ=14)
                                                                 gggTCCGACCCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCt                                                                  <  2:108978/141‑1 (MQ=255)
                                                                     tCGAACCGCCGACCCTCGGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTgtgt                                                              <  1:126070/141‑1 (MQ=255)
                                                                       gAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTc                                                            >  1:145174/1‑141 (MQ=255)
                                                                       gAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTc                                                            >  1:336101/1‑141 (MQ=255)
                                                                            gccgACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCAt                                                       <  2:277756/141‑1 (MQ=255)
                                                                            gccgACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCAt                                                       <  1:370846/141‑1 (MQ=255)
                                                                                aCCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGTAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGa                                                   >  2:252043/1‑141 (MQ=255)
                                                                                          tGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGa                                         <  2:145174/141‑1 (MQ=255)
                                                                                          tGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGa                                         <  2:336101/141‑1 (MQ=255)
                                                                                          tGTAAGGCAGATGCTCTCCCAGCTGAGCCAATCCTCAGATTTAACACTGCCTGGCAACGTTCTATTCTACCATAACGGAAGTTTCCCTTGCGTCGGCGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGa                                         <  1:183332/141‑1 (MQ=14)
                                                                                           gTAAGGCCGATGCTCTCCCAGCTGGGTTAATTCTCCGATTTAAAACTGCCGGGCAACGTTCTACTATAGCGGAACGTAAGTTCGACAACCATAGAGTCTTAGGAACTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGAc                                        <  2:43443/141‑1 (MQ=14)
                                                                                           gTAAGGCAGCTGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGAc                                        <  1:196807/141‑1 (MQ=255)
                                                                                              aGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTAGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGAcctc                                     >  1:71611/1‑141 (MQ=255)
                                                                                                          ccccAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTc                         <  1:260079/140‑1 (MQ=255)
                                                                                                                cTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGa                   <  1:149277/141‑1 (MQ=255)
                                                                                                                     cTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACatat              >  1:367535/1‑141 (MQ=255)
                                                                                                                      tAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATg             <  2:162682/141‑1 (MQ=255)
                                                                                                                             ccGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGaaa      >  1:45625/1‑141 (MQ=255)
                                                                                                                              cGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAAt     >  1:369147/1‑141 (MQ=38)
                                                                                                                                 tttAAAACTGCCTGACAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTTCTATAGTCACCAGACATATGAATGTAATTta  >  2:259925/1‑141 (MQ=255)
                                                                                                                                    |                                                                                                                                         
CAAGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAATTTA  >  CP000730/1998146‑1998415

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ 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.