New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000731 2276 =110 (1.090)9 (0.020) 5/266 9.9 1.7% intergenic (+56/+112) USA300HOU_pUSA300HOUMR0003/USA300HOU_pUSA300HOUMR0004 hypothetical protein/hypothetical protein
?NC_012417 2035 = 937 (1.060)intergenic (+268/+58) USA300HOU_RS14895/USA300HOU_RS14900 hypothetical protein/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GAACTGCATTTGCAGCTGGATGCTCTGTAGGTTGATTTTATTCCAATTGTTTTATTGACGTTGAGCCTCGGAACCCTTAACAATCCCAAAACTTGTCGAATGGTCGGCTTAATAGCTCACGCTATGCCGACATTCGTCTGCAAGTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000731/2422‑2276
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑caagtttTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTTATC  >  NC_012417/2035‑2174
                                                                                                                                                                                                                                                                                               
GAACTGCATTTGCAGCTGGATGCTCTGTAGGTTGATTTTATTCCAATTGTTTTATTGACGTTGAGCCTCGGAACCCTTAACAATCCCAAAACTTGTCGAATGGTCGGCTTAATAGCTCACGCTATGCCGACATTCGTCTGC                                                                                                                                                    >  1:246768/1‑141
   CTGCATTTGCAGCTGGATGCTCTGTAGGTTGATTTTATTCCAATTGTTTTATTGACGTTGAGCCTCGGAACCCTTAACAATCCCAAAACTTGTCGAATGGTCGGCTTAATAGCTCACGCTATGCCGACATTCGTCTGCAAG                                                                                                                                                 <  2:119640/141‑1
                                                                                CAATCCCAAAACTTGTCGAATGGTCGGCTTAATAGCTCACGCTATGCCGACATTCGTCTGCAAGTTT‑‑‑‑A‑‑GTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGA                                                              >  1:183277/1‑141
                                                                                              GTCGAATGGTCGGCTTAATAGCTCACGCTATGCCGACATTCGTCTGCAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTG                                                      >  1:353012/1‑141
                                                                                               TCGAATGGTCGGCTTAATAGCTCACGCTATGCCGACATTCGTCTGCAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGT                                                     >  2:255583/1‑141
                                                                                                 GAATGGTCGGCTTAATAGCTCACGCTATGCCGACATTCG‑‑‑ACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATC                                                >  1:179098/1‑141
                                                                                                            TTAATAGCTCACGCTATGCCGACATTCG‑‑‑ACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCA                                     >  1:282967/1‑141
                                                                                                            TTAATAGCTCACGCTATGCCGACATTCG‑‑‑ACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCA                                     >  1:282964/1‑141
                                                                                                             TAATAGCTCACGCTATGCCGACATTCG‑‑‑ACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCAT                                    >  2:153589/1‑141
                                                                                                                 AGCTCACGCTATGCCGACATTCGTCTGCAAGTTT‑‑‑‑A‑‑GTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCT                             <  2:8921/141‑1
                                                                                                                 AGCTCACGCTATGCCGACATTCGTCTGCAAGTTT‑‑‑‑A‑‑GTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCT                             <  2:347338/141‑1
                                                                                                                                           accAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCC         <  1:188481/138‑1
                                                                                                                                            CAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCT        >  1:197627/1‑141
                                                                                                                                            CAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCT        >  1:13697/1‑141
                                                                                                                                            CAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCT        >  2:110077/1‑141
                                                                                                                                             AAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTT       <  2:372649/141‑1
                                                                                                                                             AAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTT       >  1:224057/1‑141
                                                                                                                                              AGTTTTGGGATTGTTAAGGTTTCCGCGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTT      <  2:186073/141‑1
                                                                                                                                              AGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTT      <  1:101404/141‑1
                                                                                                                                              AGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTT      <  1:200767/141‑1
                                                                                                                                              AGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTT      <  1:330076/141‑1
                                                                                                                                              AGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTT      >  2:326496/1‑141
                                                                                                                                              AGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTT      >  2:301106/1‑141
                                                                                                                                              AGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTT      <  1:97660/141‑1
                                                                                                                                               GTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTTAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTT     <  1:91659/141‑1
                                                                                                                                               GTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTTAAGTAACCCGCATGTAATAGTACATTGTACATCCGTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTT     >  1:174720/1‑141
                                                                                                                                               GTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGCTTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTT     <  1:342389/141‑1
                                                                                                                                               GTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTT     <  1:65103/141‑1
                                                                                                                                               GTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTT     <  2:282976/141‑1
                                                                                                                                               GTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTT     <  1:4194/141‑1
                                                                                                                                               GTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTT     <  2:362331/141‑1
                                                                                                                                                 TTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTTAT   >  1:120744/1‑141
                                                                                                                                                 TTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTTAT   >  1:340274/1‑141
                                                                                                                                                  TTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTTATC  <  1:159433/141‑1
                                                                                                                                                  TTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTTATC  <  2:258302/141‑1
                                                                                                                                                  TTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTTATC  <  1:213235/141‑1
                                                                                                                                                  TTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCCAGGTTTCCTTTTATC  <  2:129766/141‑1
                                                                                                                                                                                                                                                                                               
GAACTGCATTTGCAGCTGGATGCTCTGTAGGTTGATTTTATTCCAATTGTTTTATTGACGTTGAGCCTCGGAACCCTTAACAATCCCAAAACTTGTCGAATGGTCGGCTTAATAGCTCACGCTATGCCGACATTCGTCTGCAAGTTT‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  CP000731/2422‑2276
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑caagtttTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAAGCAATTGGAATAAATAGTATCTAAAGTAACCCGTATTTAAGATTACATTGTACATCCTTCGAAACCATAGTAGCTGCGATTCCAGCTAGGTTTCCTTTTATC  >  NC_012417/2035‑2174

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ 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.