New junction evidence
  seq id position reads (cov) reads (cov) score skew freq annotation gene product
* ? CP009273 = 405166233 (0.610)4 (0.080) 3/272 7.9 11.6% intergenic (‑268/‑105) glnA/typA glutamine synthetase/GTP‑binding protein
?CP009273 = 4051693 30 (0.590)intergenic (‑299/‑74) glnA/typA glutamine synthetase/GTP‑binding protein
Rejected: Coverage evenness skew score above cutoff.
Rejected: Frequency below/above cutoff threshold.

GGCTGCACCACGATGTGAATGTTGCACCAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTAGACCATGGTAAAACCACCCTGGTAGAC  >  CP009273/4051545‑4051835
                                                                                                                                                    |                                                                                                                                              
ggCTGCACCACGATGTGAATGTTGCACCAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACGCTGCAATACTTGTTAGCGGAGGATg                                                                                                                                                >  1:505707/1‑149 (MQ=255)
        cacGATGTGAATGTTGCACCAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGAt                                                                                                                                        <  1:726484/149‑1 (MQ=255)
               tgAATGTTGCACCAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATc                                                                                                                                       <  2:339371/143‑1 (MQ=255)
                   tGTTGCACCAATATAGTGCTTCCTGCTGAGCAGTATGCAGCATGTATGTTGAAGGACCTTTGGATAACCCCTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTa                                                                                                                             <  1:436856/149‑1 (MQ=255)
                     ttGCACCAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGttt                                                                                                                                 >  2:838214/1‑143 (MQ=255)
                         atcAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAGGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGa                                                                                                                       <  1:127370/147‑1 (MQ=255)
                         aCCAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGCTGTTTGTGATCCTGTTTTGTAGTGCGa                                                                                                                       >  1:34252/1‑149 (MQ=255)
                         aCCAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGa                                                                                                                       >  1:805175/1‑149 (MQ=255)
                                     cTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTAGGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTGTTGTAGTGCGATTAATc                                                                                                                 >  2:545611/1‑143 (MQ=255)
                                                 cATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTGGTGCGATTAATCCGTGTACAATAACGCGCt                                                                                               >  1:806632/1‑149 (MQ=255)
                                                        cACCATGTTGGTGCAATGACCTTTGGATAAACAATTGAGTGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTa                                                                                        >  1:904873/1‑149 (MQ=255)
                                                           cATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTCATg                                                                                     >  1:99923/1‑149 (MQ=255)
                                                                 ggTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGTTCACAAAGGGACTCTGCAAGACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAg                                                                               <  1:43100/149‑1 (MQ=255)
                                                                     cAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATTCGTGTACAATAACGCGCTATTTCTAATGCCTg                                                                                 >  2:492518/1‑143 (MQ=255)
                                                                           ccTTTGGATAACCCTTGTTATGCTCCGTGAAAGCGATCACAAAGGGCCTCGGCAATACTTGTTTGCGGAGGATGTTTGTGACCCCGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCaa                                                                           <  2:240635/143‑1 (MQ=255)
                                                                             tttGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGa                                                                   <  1:215562/149‑1 (MQ=255)
                                                                                   tAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTCTTTCTAATGCCTGAGGCAAAGTTGTGGTCGaaa                                                             >  1:118853/1‑149 (MQ=255)
                                                                                                    cGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGcc                                            <  1:138685/149‑1 (MQ=255)
                                                                                                           gCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCca                                           <  2:90297/143‑1 (MQ=255)
                                                                                                                   aaaGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCGCGTa                             >  1:282131/1‑149 (MQ=255)
                                                                                                                   aaaGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTATGATCCTGTTTTGTAGTGCGATTAAGCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTa                             >  1:594766/1‑149 (MQ=255)
                                                                                                                     aGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCGAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCa                                 >  2:487387/1‑143 (MQ=255)
                                                                                                                     aGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCa                                 >  2:67442/1‑143 (MQ=255)
                                                                                                                         aCTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAGAAATTGCGTAATATCGCCATCATCGCGCACGTa                             <  2:536610/143‑1 (MQ=255)
                                                                                                                         aCTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTa                             <  2:525545/143‑1 (MQ=255)
                                                                                                                         aCTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTa                             >  2:770196/1‑143 (MQ=255)
                                                                                                                                aaTACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGGCATCATCGCGCACGTTGACCATg                      <  2:565014/143‑1 (MQ=255)
                                                                                                                                aaTACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTCGACCATGGTaaaa                <  1:624984/149‑1 (MQ=255)
                                                                                                                                    cTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGAGTAATATCGCCCTCATAGCGCCCGTAGACCATGGTaa                  >  2:357416/1‑143 (MQ=255)
                                                                                                                                     ttGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTAGACCATGGTaaa                 >  2:758598/1‑143 (MQ=255)
                                                                                                                                           gCGGAGGACGTTGGTGTTCCTGCTTGGTAGTGCGATTAATCCGTGTACCAAAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTAGACCATGGTAAAACCACCCTGGTa     <  1:664743/149‑1 (MQ=255)
                                                                                                                                              gaggaTGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTAGACCATGGTCAAACCACCCTGGTAGAc  >  1:100031/1‑149 (MQ=255)
                                                                                                                                                    gTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTATACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTAGACCATGGTAAAACCACCCTGGTAGAc  >  2:497069/1‑143 (MQ=255)
                                                                                                                                                    |                                                                                                                                              
GGCTGCACCACGATGTGAATGTTGCACCAATATAGTGCTTCAATGGAAACATTAAGCACCATGTTGGTGCAATGACCTTTGGATAACCCTTTTTATGCTCCGTGAAAGCGATCACAAAGGGACTCTGCAATACTTGTTTGCGGAGGATGTTTGTGATCCTGTTTTGTAGTGCGATTAATCCGTGTACAATAACGCGCTATTTCTAATGCCTGAGGCAAAGTTGTGATCGAAAAATTGCGTAATATCGCCATCATCGCGCACGTAGACCATGGTAAAACCACCCTGGTAGAC  >  CP009273/4051545‑4051835

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