New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913_3_hsa_pgi = 3584195NA (NA)20 (0.370) 18/270 NT 37.7% intergenic (+15/‑1) insB1/yrhA IS1 transposase B/pseudogene, interrupted by IS1E
?NC_000913_3_hsa_pgi = 3665158 33 (0.620)coding (653/825 nt) gadX acid resistance regulon transcriptional activator; autoactivator

AATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAAACCAT  >  NC_000913_3_hsa_pgi/3584048‑3584343
                                                                                                                                                   |                                                                                                                                                     
aaTTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCg                                                                                                                                                      >  1:1001270/1‑149 (MQ=11)
aaTTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCg                                                                                                                                                      >  1:652501/1‑149 (MQ=11)
        ggCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTaaa                                                                                                                                              <  1:86755/149‑1 (MQ=35)
             taCCTGAATCTGAGGCAGCACCGGGCACGGCTGGGACGGTAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTAATAGGGCGTTAATTTAACATAAAACTCTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTaa                                                                                                                                         <  2:616762/148‑1 (MQ=11)
             aaCCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCAGCACGAACAACTACACCTGCAGTATCTGAACATCAGACACTATCAATAAGTTGGAGTCATTACCTACATTAAAAGTaa                                                                                                                                         <  2:715661/149‑1 (MQ=11)
              aCCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAAc                                                                                                                                        >  1:43461/1‑149 (MQ=38)
              aCCTGAAGCTGAGGCAGCAACTGTCAAGGCTGGGACGGAAGTCGCTGTCGTTTTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAAc                                                                                                                                        <  2:279546/149‑1 (MQ=11)
                cTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGCCATTACCGACATTAAAAGTAACtt                                                                                                                                      >  1:637757/1‑149 (MQ=255)
                cTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGAAAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACtt                                                                                                                                      >  1:345806/1‑149 (MQ=255)
                 tGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTCTCAATAAGTTGCAGTCATTACCGACATTAAAAGTAACttt                                                                                                                                     >  2:301769/1‑149 (MQ=255)
                     tCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGGAACTTTTTTg                                                                                                                                 >  1:846324/1‑149 (MQ=255)
                           gcagcaCCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTa                                                                                                                           <  2:1004329/149‑1 (MQ=255)
                               caCCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTagagg                                                                                                                       >  1:170720/1‑148 (MQ=255)
                               caCCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAgaga                                                                                                                       >  1:477239/1‑149 (MQ=255)
                                  cTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATAGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTTGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGataa                                                                                                                    >  2:440890/1‑149 (MQ=255)
                                    ggCACGGCTGGGACGGAAGTCGCTGTCTTTCCCAAAATAGGTGGCGCTGCATCACAAAGTCCTCGGGCATTATCTGAACATAACACACTATCACTAAGTTAGAGTCCTTCACAACATTAAACGTAACCTTTTTAAAAATAGAGccaata                                                                                                                  >  2:231016/1‑149 (MQ=14)
                                        cGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATTACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGTGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTgg                                                                                                              <  2:189777/149‑1 (MQ=255)
                                                 gggAAGTCGCTGTCGTTGTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGaaaa                                                                                                     <  2:595677/148‑1 (MQ=255)
                                                                ttCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGtt                                                                                     >  2:734259/1‑149 (MQ=255)
                                                                  ctcAAATTCGTTGGAGCTGTATGACAGAGTCATCGGGCATTATCTGAACATAATACACTATCAATAAGTTGGCGTCTTTACAGTCATTAAAAGTAACTGTTTTGAAATTAGAGATAATATTTGCACAGAAAATATATTCAGTTCGTTTa                                                                                   <  2:17358/149‑1 (MQ=21)
                                                                     gaaaTCGGTGGAGCTGCATGACACAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGACATTACCGACATTGAAAATAACTTTTTTGAAATTAGAGACAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTg                                                                                >  2:927540/2‑149 (MQ=25)
                                                                     aaaaTCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTg                                                                                >  1:705946/1‑149 (MQ=255)
                                                                      aaaTCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGa                                                                               <  2:343114/149‑1 (MQ=255)
                                                                       aaTCGGTGTAGCTGCATGACAAAGTCATCGGGCACTATCTGAACATAAAACACTACCAATAAGATGGAGTTATTATCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGAt                                                                              <  1:892304/149‑1 (MQ=25)
                                                                       aaTCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTTAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTATTGAt                                                                              >  2:76479/1‑149 (MQ=255)
                                                                                         aCAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTATCTTCAGTCTTaaaa                                                            >  1:298949/1‑148 (MQ=255)
                                                                                                cATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAATTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCa                                                     >  1:429282/1‑149 (MQ=255)
                                                                                                aagcGGGTATTATATAAACAGAAAAGAATATCAATAGGTTGGAATCATAACCGAAATTCAAAGTAACTTTTTTGAAATTAGAGTTAATAAAAAAACAAAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTCAAACGAAATCa                                                     <  2:874250/146‑1 (MQ=255)
                                                                                                    gggCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACAAAATCATGGa                                                 >  1:453097/1‑149 (MQ=255)
                                                                                                          tATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGt                                                                                 >  2:263585/1‑111 (MQ=255)
                                                                                                          tATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGt                                                                                 <  1:263585/111‑1 (MQ=255)
                                                                                                            tCTTAACATAAGACAATAGCAATGAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAgttgtt                                         <  2:640331/149‑1 (MQ=255)
                                                                                                               gAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCat                                      >  1:459486/1‑149 (MQ=255)
                                                                                                                aaCATAAAACACTATCAATAAGTTGGAGACAATACCGACAATAAAAGAAACTCTTTTGAAACGCGGTATAAAAATGGGACGAAAAGATTATTCAGTTGGTTTAGTGATTGCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCata                                     <  2:590186/149‑1 (MQ=19)
                                                                                                                 aCATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCataa                                    >  1:878888/1‑149 (MQ=255)
                                                                                                                       aaCACTATCAATAAGTTGGAGTCATTAGCGACATTAAAAGTAACTTTTTTGAAATTAGGGATAATATTGGCGCAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAAAGAAATCATGTGCAGTGGTTCATAATAATCa                              >  2:344846/1‑149 (MQ=255)
                                                                                                                            tATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAgg                         >  1:501083/1‑149 (MQ=255)
                                                                                                                              tCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACACTTGTTCATAATAATCAAAAAGaa                       >  1:176750/1‑149 (MQ=255)
                                                                                                                                      ttGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGCGATAAAAATGGCACAGAAAATATATGCTGTTCGTTTAATGATTTCTCTTCGTTCTAAAACGAAATAATTGACAGTTCTTCATAATACTCCAAACGCAACaaaagt               >  2:314319/1‑147 (MQ=255)
                                                                                                                                       tGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATc              >  2:140175/1‑149 (MQ=255)
                                                                                                                                          gttCATAACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCAtt           <  2:43461/147‑1 (MQ=255)
                                                                                                                                          ggTCTTTACCGTCATTAAAAGTAACTTTTTTGAAATTAGTGATATTATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCAtt           <  1:301769/148‑1 (MQ=255)
                                                                                                                                          ggTCATTGCCGACATTAAAGGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCAtt           <  1:474183/148‑1 (MQ=255)
                                                                                                                                                   cGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCTTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTTATAATAATCAAAAGGAAACAAAAATCATTGTAAACCAt  >  1:211627/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                     
AATTGAGCGGCATAACCTGAATCTGAGGCAGCACCTGGCACGGCTGGGACGGAAGTCGCTGTCGTTCTCAAAATCGGTGGAGCTGCATGACAAAGTCATCGGGCATTATCTGAACATAAAACACTATCAATAAGTTGGAGTCATTACCGACATTAAAAGTAACTTTTTTGAAATTAGAGATAATATTGGCACAGAAAATATATTCAGTTCGTTTAGTGATTTCTCTTCATTCTTAAACGAAATCATGGACAGTTGTTCATAATAATCAAAAGGAAACAAAAATCATTGTAAACCAT  >  NC_000913_3_hsa_pgi/3584048‑3584343

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