New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000730 512620 =25 (0.840)25 (1.220)
+TTATCTTGTCCATTTTATTTTTTAACCAAAATTTGATTAA
19/180 NT 59.2% 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

AAGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAATTTA  >  CP000730/1998147‑1998415
                                                                                                                                   |                                                                                                                                         
aaGTCAGTTGCTCTACCAATTCAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGATCGAACCGCCGACCATCGGGTTGTAAGGCAGATGCCGTCCCAGCTGAGCTACTTCTCCGCTATAACCCTGccg                                                                                                                                  >  2:176382/1‑140 (MQ=11)
   tCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTATCCGATTTAAAACTGCCTGGc                                                                                                                               <  1:40054/141‑1 (MQ=255)
   tCAGTTCCCTTACCACTTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGc                                                                                                                               <  2:116630/141‑1 (MQ=255)
   gcAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGc                                                                                                                               <  1:40029/140‑1 (MQ=255)
   gcAGGTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGc                                                                                                                               <  1:284822/140‑1 (MQ=255)
    ctgTTGCTCTACCACTTGGGCGAGGCCCGCAATTTGTAAACATAACTGTTTTAGGTTGTCGGATTCTAACCGCCGTCCCTCTGCTTCTAATGTTGATGCGCTCTCAGCTGAGCTAATACTCCGATTTAAAACTGCCTGGCa                                                                                                                              <  2:141917/139‑1 (MQ=255)
    cAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCa                                                                                                                              >  2:81732/1‑141 (MQ=255)
         gCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGtt                                                                                                                         >  1:149189/1‑141 (MQ=255)
            ctACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTa                                                                                                                      <  1:306732/141‑1 (MQ=255)
                cAATTGAGCTAGGCCGGCAATATGCAAGAATAAATGGGGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTCAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTActct                                                                                                                  <  2:335908/141‑1 (MQ=255)
                         tAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGGTGAGCTAATTCTCCGATTTAAAACTGTCTGGCAACGTTCTACTCTAGCGGAACg                                                                                                         <  1:238647/141‑1 (MQ=255)
                              cGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGGGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGt                                                                                                    >  1:272585/1‑141 (MQ=255)
                                   atatGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGGGCCGCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGGACGTAAGTTCgcc                                                                                               >  2:90738/1‑139 (MQ=255)
                                   atatGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGAc                                                                                               >  2:288001/1‑141 (MQ=255)
                                   atatGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGAc                                                                                               >  1:307490/1‑141 (MQ=255)
                                      tGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTAc                                                                                            <  1:307681/141‑1 (MQ=255)
                                      ggtcagcaTAAATGGTGGCGAATGACGTGTCCGAACCGCCGCCCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTAc                                                                                            <  2:334891/134‑1 (MQ=17)
                                       gTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATGTAAAACTGCCTGGCACCGTTCTACTCTAGCGAGAGGGAAGTTCGACTAcc                                                                                           >  2:189285/1‑141 (MQ=14)
                                                       gcgaATGACGCGTTCCACCCGCCGACCCACTGCATGTAAGGCAACTGCTCTCCCAGCTGAGCTAATTCTCCCACTTAAAACTCCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGc                                                                           <  2:133123/139‑1 (MQ=14)
                                                                     cGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATCTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGtt                                                             <  2:256662/141‑1 (MQ=255)
                                                                                cccTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGCCTACCCACGACGCTAAGGAGCTTAACCTCTGCGTTCGGCATGGGaa                                                  >  2:99140/1‑141 (MQ=14)
                                                                                           tAAGGCAGATGCTCTCCCAGCTTAGCTAATTCTCCGATTTAAAATTGCCTTGTAGCGTTCTTCTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGAcc                                       <  2:267796/141‑1 (MQ=14)
                                                                                           gatttgaggggccctcCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGAcc                                       <  2:88229/128‑1 (MQ=255)
                                                                                                   aTGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCt                               >  1:226794/1‑141 (MQ=255)
                                                                                                      ctctCCCAGCTGAGCTAATGCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCtgta                            >  1:190455/1‑141 (MQ=255)
                                                                                                         tcCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTc                         >  2:357349/1‑141 (MQ=255)
                                                                                                                    cTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGAGCTCCTTGCTATGGTGACCAGACatat              >  1:215462/1‑141 (MQ=255)
                                                                                                                    cTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACatat              >  2:339965/1‑141 (MQ=255)
                                                                                                                     tAATTCTCCGGTTTAAGCCTGCCCGGCAATGTTCTCCTCGAGCGGCACGTAAGTTCGACTACCAGCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATg             <  2:313617/141‑1 (MQ=11)
                                                                                                                            ccGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTaa      <  2:26099/141‑1 (MQ=39)
                                                                                                                                tttAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAGTGTAGtttc  >  1:25413/1‑140 (MQ=255)
                                                                                                                                tttAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAAGGTACTTta  >  2:68444/1‑141 (MQ=25)
                                                                                                                                   |                                                                                                                                         
AAGTCAGTTGCTCTACCAATTGAGCTAGGCCGGCAATATGTAAGAATAAATGGTGGAGAATGACGGGTTCGAACCGCCGACCCTCTGCTTGTAAGGCAGATGCTCTCCCAGCTGAGCTAATTCTCCGATTTAAAACTGCCTGGCAACGTTCTACTCTAGCGGAACGTAAGTTCGACTACCATCGACGCTAAGGAGCTTAACTTCTGTGTTCGGCATGGGAACAGGTGTGACCTCCTTGCTATAGTCACCAGACATATGAATGTAATTTA  >  CP000730/1998147‑1998415

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ 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.