New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 257908 =NA (NA)49 (0.980) 43/282 0.1 100% intergenic (+9/‑768) crl/crl pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers/pseudogene, sigma factor‑binding protein, RNA polymerase holoenzyme formation stimulator,regulator, Surface structures, transcriptional regulator of cryptic csgA gene for curli surface fibers
?NC_000913 = 1293039 0 (0.000)intergenic (‑117/‑488) hns/tdk global DNA‑binding transcriptional dual regulator H‑NS/thymidine kinase/deoxyuridine kinase

AGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGCCAATAAATATCTTTTCATAAAATTAGCCAGAAAAGACGCGGCATATAGCCCTATTTACACCGATGATTTCGCAGCACGTGAGGTTAAAACTTCCTGATTCATGTCACATTTTATGGGGAGATTATCGTAGGCTGACGACC  >  NC_000913/1292900‑1293180
                                                                                                                                           |                                                                                                                                             
aGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGTAATAGCCAGGAATGTAAGGAATTCAAAATTGTACTTTCGTTTGTGCCGggt                                                                                                                                            <  1:423091‑M2/143‑4 (MQ=255)
aGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTTTACCGggt                                                                                                                                            <  1:467318‑M2/143‑4 (MQ=255)
        aaGTGCTTCGCTCATTGGAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactc                                                                                                                                    >  1:143174‑M2/1‑132 (MQ=255)
           tGCTTCGCTTATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaa                                                                                                                                 >  2:753409‑M2/1‑129 (MQ=255)
            gCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaac                                                                                                                                <  2:618448‑M2/143‑16 (MQ=255)
                     aTTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgata                                                                                                                       <  2:581742‑M2/143‑25 (MQ=255)
                       tGTAGTAATCGCAAACTTATATCGGGGTGGTTTGTTGAGGTAATAATAGAGACTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagt                                                                                                                     >  1:739859‑M2/1‑117 (MQ=255)
                        ggagtaagCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtg                                                                                                                    >  1:244072‑M2/3‑116 (MQ=255)
                                ctcAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgt                                                                                                            >  2:560169‑M2/1‑108 (MQ=255)
                                   aaaCTTATATTGGGGGGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttca                                                                                                         >  2:481550‑M2/1‑105 (MQ=255)
                                         atatTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactcaaacttattgagagtcttttatgttcagataat                                                                                                   <  2:534472‑M2/143‑45 (MQ=255)
                                               gggTGGTTTGTTGAGGGAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccga                                                                                             >  2:190261‑M2/1‑93 (MQ=255)
                                               gggTGGTTTGTTGAAGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccga                                                                                             >  1:5999‑M2/1‑93 (MQ=255)
                                                ggtggtTTGTGGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATCGCACGGAATGTTGAGGATGCAAAGTTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgat                                                                                            <  2:600210‑M2/143‑52 (MQ=255)
                                                   ggtGTGGTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgac                                                                                         >  2:415759‑M2/1‑89 (MQ=255)
                                                    gtTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgact                                                                                        >  2:784092‑M2/1‑88 (MQ=255)
                                                      ttgttgAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgacttt                                                                                      <  1:135909‑M2/143‑58 (MQ=255)
                                                         ttgAGGTAATAATAGGGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtc                                                                                   >  1:164646‑M2/1‑83 (MQ=255)
                                                         ttgAGGTAATAATAGAGCGTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtc                                                                                   >  1:572273‑M2/1‑83 (MQ=255)
                                                         ttgAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtc                                                                                   >  2:835373‑M2/1‑83 (MQ=255)
                                                             ggTAATAATAGAGCTTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAGATTGTTCTTTATTTTGTGCCGggtgatgactccaactttttgatagtgttttatgttcagataatgcccgatgactttgtcatgc                                                                               >  2:224110‑M2/1‑79 (MQ=255)
                                                             ggTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcaagc                                                                               <  1:486963‑M2/143‑65 (MQ=255)
                                                              gTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatcactccaacttattgatactgttttatattcatataattcccgctcactttgtcatgca                                                                              <  2:592456‑M2/143‑66 (MQ=255)
                                                               taataaTAGATCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcag                                                                             >  1:560348‑M2/1‑77 (MQ=255)
                                                                     gagagcGGTAAAGTCGGTTGGGCTATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgagtccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccac                                                                       >  1:589256‑M2/2‑71 (MQ=255)
                                                                         gCCTTATATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgat                                                                   >  1:305447‑M2/1‑67 (MQ=255)
                                                                            ttAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgctagtgttttatgttcagatactgcccgatgactttgtcatgcaactgcacccgcttt                                                                <  1:94292‑M2/143‑80 (MQ=255)
                                                                            ttAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatcactttgtcatgcagctctcacgatttt                                                                <  1:506355‑M2/143‑80 (MQ=255)
                                                                             tAAATTCAGTTGGTCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttg                                                               >  1:617286‑M2/1‑63 (MQ=255)
                                                                                     gTTGTGCAATAGCCAGGAACGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataaggcccgatgactttgtcatgcagctccaccgattttgagaacgac                                                       >  1:241058‑M2/1‑55 (MQ=255)
                                                                                        gtgCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcggataatgcccgatgactttgtcatgcagctccaccgattttgagaacgactgc                                                    <  2:549648‑M2/143‑92 (MQ=255)
                                                                                            aaTAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgact                                                >  1:749321‑M2/1‑48 (MQ=255)
                                                                                             aTAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgactt                                               >  2:366534‑M2/1‑47 (MQ=255)
                                                                                                gCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccg                                            >  2:38981‑M2/1‑44 (MQ=255)
                                                                                                gCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgacagaaatccctcccgtgcagcttgaccgatttttagaacgacagcgacttccg                                            <  2:636641‑M2/143‑100 (MQ=255)
                                                                                                    ggATTGTAAGGTATTCATAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtccc                                        >  1:260688‑M2/1‑40 (MQ=255)
                                                                                                       aTGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagc                                     >  2:427247‑M2/1‑37 (MQ=255)
                                                                                                           aaGGAATTCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccaggcgtg                                 <  1:215495‑M2/143‑111 (MQ=255)
                                                                                                                 ttCAAAATTGTTCTTTATTTTGTGCCGggtaatgactccaacttatcgatagtgttttatgttgagatactgcccgatgactgtgtcatgcagctccaccgacattgaggacgacggcgacttccgcgccagccggtcaggga                           <  1:556705‑M2/143‑117 (MQ=255)
                                                                                                                  tCAAACTTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatggtcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtg                          >  2:815528‑M2/1‑26 (MQ=255)
                                                                                                                     aaaTTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctg                       <  2:715753‑M2/143‑121 (MQ=255)
                                                                                                                      aaTTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgc                      >  1:86544‑M2/1‑22 (MQ=255)
                                                                                                                       aTTGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttctgttcagataatgcccgctgactttgtcatgcagctccaccgatttccagcacgacagcgacctccgccccacccgccccagccgccccc                     <  1:319692‑M2/143‑123 (MQ=255)
                                                                                                                        ttGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcct                    >  2:760341‑M2/1‑20 (MQ=255)
                                                                                                                        ttGTTCTTTATTTTCTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagcacgccagcgactcccgtcccagccctgccagcgtctccct                    <  1:789382‑M2/143‑124 (MQ=255)
                                                                                                                         tGTTCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctc                   >  2:625792‑M2/1‑19 (MQ=255)
                                                                                                                            tCTTTATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcaga                >  1:784819‑M2/1‑16 (MQ=255)
                                                                                                                               ttATTTTGTGCCGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccctcccagccgtgccagctgctgcctcacatcg             <  2:738411‑M2/143‑131 (MQ=255)
                                                                                                                                          cGggtaatgactccaacttattgatagtgttttatgttcagataatgcccgatgactttgtcatgcagctccaccgattttgagaacgacagcgacttccgtcccagccgtgccaggtgctgcctcagattcaggttatgccg  >  2:177997‑M2/1‑2 (MQ=255)
                                                                                                                                           |                                                                                                                                             
AGAATTTTAAGTGCTTCGCTCATTGTAGTAATCTCAAACTTATATTGGGGTGGTTTGTTGAGGTAATAATAGAGCCTTAAATTCAGTTGTGCAATAGCCAGGAATGTAAGGAATTCAAAATTGTTCTTTATTTTGTGCCGCCAATAAATATCTTTTCATAAAATTAGCCAGAAAAGACGCGGCATATAGCCCTATTTACACCGATGATTTCGCAGCACGTGAGGTTAAAACTTCCTGATTCATGTCACATTTTATGGGGAGATTATCGTAGGCTGACGACC  >  NC_000913/1292900‑1293180

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.