New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? NC_000913 3453931 =139 (1.080)25 (0.210) 11/162 NT 17.7% coding (1468/1470 nt) gspA general secretory pathway component, cryptic
?NC_000913 3453962 = 106 (0.900)coding (1437/1470 nt) gspA general secretory pathway component, cryptic

GTTGGCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3454036‑3453931
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggggaaatATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTG  >  NC_000913/3453962‑3454060
                                                                                                                                                                                                             
GTTGGCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGG                                                                                                           >  1:1734985/1‑100
  TGGCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAACTATTTCCCCGGAAACAACAGTGAAGGGG                                                                                                         >  2:3606945/1‑100
  TGGCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGG                                                                                                         >  1:555752/1‑100
  TGGCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGG                                                                                                         <  1:3285430/100‑1
   GGCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGA                                                                                                        >  1:1111127/1‑100
   GGCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGA                                                                                                        >  2:522600/1‑100
    GCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAA                                                                                                       >  2:375357/1‑100
    GCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAA                                                                                                       <  1:3344388/100‑1
      TTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAAT                                                                                                     <  1:914301/100‑1
      TTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGACAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAAT                                                                                                     <  1:3573590/100‑1
                                                 CCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACC                                                          >  1:779296/1‑100
                                                 CCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACC                                                          >  1:779222/1‑100
                                                                  GAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACT                                           >  1:243403/1‑98
                                                                    AGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACG                                       >  1:1154729/1‑100
                                                                    AGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACG                                       >  1:13930/1‑100
                                                                    AGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCAAGAGATGTACTAACG                                       >  1:67175/1‑100
                                                                     GCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGT                                      >  1:3361320/1‑100
                                                                     GCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGT                                      >  2:277843/1‑100
                                                                     GCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGT                                      >  1:3238235/1‑100
                                                                     GCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGT                                      >  1:1478259/1‑100
                                                                      CAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGGCACCTGCCAGAGATGTACTAACGTT                                     >  2:1779090/1‑100
                                                                      CAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTT                                     >  2:1128945/1‑100
                                                                      CAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTT                                     >  1:1281473/1‑100
                                                                      CAAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTT                                     >  1:2041876/1‑100
                                                                       AAATATTTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTG                                    >  1:987198/1‑100
                                                                            TTTCCCCGGAAACACCAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAG                               >  2:189892/1‑100
                                                                            TTTCCCCGGAAACAACAGTGAAGGGGACATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGCTGTACTAACGTTGAAAAG                               >  1:816372/1‑100
                                                                             TTCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGC                              >  1:1022057/1‑100
                                                                              TCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCC                             >  1:231372/1‑100
                                                                              TCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCC                             >  1:1780106/1‑100
                                                                              TCCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCC                             >  2:1495590/1‑100
                                                                               CCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCA                            >  2:1668256/1‑100
                                                                               CCCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCA                            >  1:1370526/1‑100
                                                                                CCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAA                           >  1:1290836/1‑100
                                                                                CCCGGAAACAACAGTGAAGGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAA                           >  2:1391846/1‑100
                                                                                                  GGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCA         <  2:975535/100‑1
                                                                                                  GGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCA         <  2:2281670/100‑1
                                                                                                  GGGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCA         <  2:1107186/100‑1
                                                                                                   GGGAAATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCAA        >  1:90847/1‑100
                                                                                                       AATATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCAAGTGG    <  2:3197821/100‑1
                                                                                                         TATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTG  <  1:1490756/100‑1
                                                                                                                                                                                                             
GTTGGCTTTTCAACGTTAGTACATCTCTGGCAGGTGGCAGGGGAGAGTGCCTACTTATATCGGGATGAAGCAAATATTTCCCCGGAAACAACAGTGAAGGGGAAAT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3454036‑3453931
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑ggggaaatATTTGCTTCATCCCGATATAAGTAGGCACTCTCCCCTGCCACCTGCCAGAGATGTACTAACGTTGAAAAGCCAACAACACCGTCAGTTTTCAAGTGGTG  >  NC_000913/3453962‑3454060

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ 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.