New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP000731 = 441954 (0.790)5 (0.010) 4/262 9.5 1.5% intergenic (+384/‑81) USA300HOU_pUSA300HOUMR0006/cadR hypothetical protein/cadmium binding protein
?NC_012417 = 1946 614 (1.020)intergenic (+179/+147) USA300HOU_RS14895/USA300HOU_RS14900 hypothetical protein/hypothetical protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

CGCATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000731/4275‑4419
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcaataaaTTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTGTG  <  NC_012417/1946‑1808
                                                                                                                                                                                                                                                                                            
CGCATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTCAGCCGAACATTCGACAAGTATTGGGATTGATAAGGGTGCAGAGGCGCCGCGTCA                                                                                                                                                  >  2:248861/1‑140
CGCATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTTAACGTCA                                                                                                                                                  >  2:207627/1‑140
 GCATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGTGATTGTTAAGGGTTCCGAGGCTCAACGTCAA                                                                                                                                                 <  1:242593/140‑1
 GCATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAA                                                                                                                                                 >  2:12766/1‑140
  CATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACCAGGTTTGGGCTTGTTACGGGTTCCGAGGCTCAACGTCAAT                                                                                                                                                >  2:28764/1‑140
  CATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAAT                                                                                                                                                >  2:220920/1‑140
  CATTTATGCCGAAAAAATGTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAAGATCAACGTCAAT                                                                                                                                                >  2:32966/1‑140
   gTTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTTGGGATAGCGTGAGCTATTAAGCCGACCATTGGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATA                                                                                                                                               <  1:102435/139‑1
   ATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCGTTAACTAAACTTGCAGACGCATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTCTGGGCTTGTTAAGAGTTGCGCGGCTCAACGTCAATc                                                                                                                                               >  1:178026/1‑139
   ATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGCATGTCGGTATAGCGTGCGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATA                                                                                                                                               <  2:174971/140‑1
    tgTATGACGAAATAATTTAGTGATGGTGAGAAGAACCGTTAACTAAGCTGGCAGACGCATGTCGGCATAGCGTGAGATATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAA                                                                                                                                              <  2:166297/138‑1
    tcTATGCAGAAAAAATTGATTCATGTTGAGAAGAACCCTTAAATAAACTTGCAGACGAATGTCGGCATAGCGTGTGCTATTAAGCCGCCCATTCTACAATTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAA                                                                                                                                              <  2:166567/138‑1
    TTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAA                                                                                                                                              <  1:101229/140‑1
    TTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAA                                                                                                                                              <  2:149613/140‑1
    TTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAA                                                                                                                                              <  1:238478/140‑1
       gcGCCAAAACAATTTATTAGTGTGGAGAAGCACCCTTAACTAAACTTGCGGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACCAGTTCTGGGATTGTTAAGGGTTCCCAGGCACAACGTCAATAAcgc                                                                                                                                           <  2:132461/138‑4
                       TTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAATTTTCTCGGCATAAATGC                                                                                                                           >  1:257908/1‑140
                       TTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGACGCTCACAGTCAATAAATTTTCTCGGCATCAATGC                                                                                                                           >  2:41867/1‑140
                               GAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTC‑‑‑TTCTCAACATCAATAAATTTTCTCGGCATAAATGCGTAGTCTATTT                                                                                                                >  1:169958/1‑140
                                 GAAAAACCCTTAACTAATCTTGCAGACGAATGTCGGCATAGCGGGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAATTTTCTCGGCATAAATGCGTCGTCTATT                                                                                                                 <  2:217030/140‑1
                                     AACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTT                                                                                                             >  2:143287/1‑140
                                                                                                                                    caatataAATAAATTTGCTCGGCATGAATGTGTCGTCTATTTTTTATTATCTGCATGATAATCATATTTTTCGGCCAAGTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAA              <  2:192782/133‑1
                                                                                                                                        attAATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAA          <  1:143458/137‑1
                                                                                                                                         gtAATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTTCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAATCAACAACACTAATATAAATAAAAAAA         >  2:181093/3‑140
                                                                                                                                         TCAATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTTTTTTTTTTTGTTTAAAGCATTATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATATGAATATAAAAA         >  2:213629/1‑140
                                                                                                                                         TCAATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAACCAAAAAGTAAGCAACAACAACAATAACATTAAAAAAA         >  2:72530/1‑140
                                                                                                                                         TCAATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACACAAAGTAAGCAACAACACCAATAAGAATAAAAAAA         >  2:71986/1‑140
                                                                                                                                         TCAATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCATTAGGAATAAAAAAA         >  2:170614/1‑140
                                                                                                                                         TCAATAAAGTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGGCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAA         <  2:219864/140‑1
                                                                                                                                           AATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCATAAGCATCATCTTTATATAAAAAACACAAGTAATCAACAAAACCAATAGAAATAAAACAACA       >  2:210633/1‑140
                                                                                                                                           AATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTATGCAACAACACTAATAGAAATAAAATAACA       >  2:27636/1‑140
                                                                                                                                           AATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACA       <  2:112715/140‑1
                                                                                                                                           AATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGCAATAAAAAAACA       >  1:240612/1‑140
                                                                                                                                            ATAAATTTTCTCGGCATAGATGCGTCGTCTATTTTTTATTATCATCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAG      <  1:158886/140‑1
                                                                                                                                            ATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAATTAAGCAACAACACCAATAGGAATAAAAAAACAG      >  1:173403/1‑140
                                                                                                                                            ATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCACTAGGAATAAAAAAACAG      >  1:141609/1‑140
                                                                                                                                            ATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAG      <  1:107650/140‑1
                                                                                                                                            ATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAG      <  1:179721/140‑1
                                                                                                                                            ATAAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAG      >  2:167751/1‑140
                                                                                                                                            ATAAATTTTCTCGGCATAAATGCGTCATCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCCTCTTTATAGAAACACAAAAAGTAAGCAACAACACCACTAGAAATAAAAAAACAG      >  2:135549/1‑140
                                                                                                                                              AAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCTATCTCGTCAAAAGCATCTTCTTTATATACAAACAAAAAGTATGCAACAACACCAATAGGAATAAAAAAACAatt    >  2:120526/1‑137
                                                                                                                                              AAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCTTCTCGTCAAATGCATCATCTTTATAGTAAAACAAAAAGTAAGCAACAACACTAATCGGAATAAAAAAACAGTG    >  1:14105/1‑140
                                                                                                                                              AAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGTAATAAAAAAACAGTG    >  1:19755/1‑140
                                                                                                                                              AAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTG    <  2:98407/140‑1
                                                                                                                                              AAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTG    >  1:176377/1‑140
                                                                                                                                              AAATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTACTTACATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCACTAGGAATAAAAAAACAGTG    <  2:258152/140‑1
                                                                                                                                               AATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATTTTCATGATAATCGTATTTTTCTTCCATCTCGTCAAAAGCATTATCTTTATCTAAATATAAAAAGTAAGCAATAACACCAATAGGAATAAAAAAACATTGT   >  1:55310/1‑140
                                                                                                                                               AATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATCAGAATAAAAAAACAGTGT   >  1:118556/1‑140
                                                                                                                                               AATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTGT   <  1:244451/140‑1
                                                                                                                                               AATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTGT   <  1:143287/140‑1
                                                                                                                                               AATTTTCTCATCATAAATGCGTAGGATATTTGTTATAATCTTTATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCCTCTTTATAGAAAAATAAAAAGTAAGCAACAACACCAATAGGAAAAAAAAAACAGTGT   <  2:231062/140‑1
                                                                                                                                                ATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGCTTCCGATATTTTTCTTCCCTATCGTCAATAGCATCATCTTTATAGAAAAACATAAAGTAAGCAACAACACCAAGAGGAATAAAAAAACAGTGTG  <  1:165228/140‑1
                                                                                                                                                ATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTGTG  <  1:255537/140‑1
                                                                                                                                                ATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTGTG  <  1:253651/140‑1
                                                                                                                                                ATTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTGTG  <  1:100578/140‑1
                                                                                                                                                ATTTTCTCGGCATAAATGCGTCGTATATTTTTTATTATCTTCATGATAATAATATTTATCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTGTG  <  2:72962/140‑1
                                                                                                                                                                                                                                                                                            
CGCATTTATGCCGAAAAAATTTATTGATGTTGAGAAGAACCCTTAACTAAACTTGCAGACGAATGTCGGCATAGCGTGAGCTATTAAGCCGACCATTCGACAAGTTTTGGGATTGTTAAGGGTTCCGAGGCTCAACGTCAATAAA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP000731/4275‑4419
‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑tcaataaaTTTTCTCGGCATAAATGCGTCGTCTATTTTTTATTATCTTCATGATAATCATATTTTTCTTCCATCTCGTCAAAAGCATCATCTTTATAGAAAAACAAAAAGTAAGCAACAACACCAATAGGAATAAAAAAACAGTGTG  <  NC_012417/1946‑1808

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.