New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	= 1120722	23 (0.600)	9 (0.250)	8/294	NT	26.7%	coding (61/1209 nt)	mdtH	multidrug resistance efflux transporter conferring overexpression resistance to norfloxacin and enoxacin
	?	CP009273	= 1121068	28 (0.780)					coding (51/585 nt)	rimJ	ribosomal‑protein‑S5‑alanine N‑acetyltransferase

GTGCCACCGAGTCCCGAGAGCAGGCATGAAAACCACAATAGCCACGGTTCGTGGGCGATACCCATTGTGGCGAATCCGGCGGCGCGCATCAGCATACCGGTAACAATCATCGGTTTGGCACCAAAGCGGTCGGCAATTGCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGACCAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/1120442‑1120722 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcacgaccagTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAACCAGACCCTGTGAAAAGTCCAAAATGCCATTTTCTGCATTATTCACATATTTGATAAA  <  CP009273/1121068‑1120898                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GTGCCACCGAGTCCCGAGAGCAGGCATGAAAACCACAATAGCCACGGTTCGTGGGCGATACCCATTGTGGCGAATCCGGCGGCGCGCATCAGCATACCGGTAACAATCATCGGTTTGGCACCAAAGCGGCCGGCAATTGCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGACGGCCCAACCCATTTGATCAACGAAGAGGAAAGAGAGCAGCGGGAAGACAACAAAGAACCCCAGCc                                                                                                                                                                                    >  2:719866/1‑273     CACCGGGTCCCGAGAGCAGGCATGAAAACCAAAATAGCCACGGTTCGGGGGCGATACCCATTGTGGCGAATCCGGCGGTGCGCATCAGCATACCGGTAACAATCATCGGTTTGGCACCAAAGCGGTCGGCAATTGCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGAC                                                                                                                                                                                <  1:719876/274‑1                           TGAAAACCACAATAGCCACGGTTCGTGGGCGATACCCATTGTGGCGAATCCGGCGGCGCGCATCAGCATACCGGTAACAGTCATCGGTTTGGCACCAAAGCGGTCGGCAATTGCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGACCAGTCGGTCTGTAGTTAAGCGCA                                                                                                                                                         <  1:714372/275‑1                                                  CGTGGGCGATACCCATTGTGGCGAATCCGGCGGCGCGCATCAGCATACCGGTAACAATCATCGGTTTGGCACCAAAGCGGTCGGCAATTGCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAAACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAACGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAAAACAACCAacataata                                                                                                                                                                      >  2:710940/1‑231                                                        CGATACCCATTGTGGCGAATCCGGCGGCGCGCATCAGCATACCGGTAACAATCATCGGTTTGGCACCAAAGCGGTCGGCAATTGCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGCACCCCAGCACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCacaa                                                                                                                             >  1:218155/1‑270                                                                                                                            AAGCGGTCGGCAATTGCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGAGCAGTCGGTCTGTGGTTAAGCGAACTTTTGGCACGTTACTGCGATAGCCAAACATTATCTACCTACTACTGCCCGGAACGTCACTAATACGCTCNNAACATTACGANNNCAGCGagca                                                           >  2:540033/1‑268                                                                                                                                           GCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCA                                                                                                                                                                                    >  1:253501/1‑136                                                                                                                                               CGCCGAAAATACCCTGCCCTTGCTTAATAAATTGGCGTAGAACGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAACCAGACCCTGTGAAAAGTCCAAA                                     <  1:299668/275‑1                                                                                                                                               CGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGAC                                                                                                                                                                                <  2:253496/136‑1                                                                                                                                                GCCGAAAATACCCAGACCTTGCTGAATAAATTGGCTTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAANCGGATAGAGATCAGCGGGATGACAACAAAGAACCCCAGCACGACCAGTCGTTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAACCAGACCCTGTGAAAAGTCCAAA                                     <  1:540041/274‑1                                                                                                                                                GCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAACCCGACCCTAACAAAATTCCAA                                      >  2:579757/1‑273                                                                                                                                                                caaTGCTGAATAAATGAGCGTACACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGAGCAGCGGGAAGACAACAAAGAACCCCAGCACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCTATAGCCAAACATTCTATACCTACTCCTTCCCGTAACCTCTTTAAGACGCTGTAAGTATTACTATACCTGCGCAACCAGACCCTGTGAAAAGTCCAAAATGCCATTTTCTGCATT                    <  2:218150/272‑1                                                                                                                                                                         ATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAAACAGACCCTGTGCAAAGTCAAAAATGCCATTTTATGCCTTATTCACA             >  2:723594/1‑273                                                                                                                                                                                  CGTAGACCGAGAGCAATACCGACCATGACGGCGACCCAGCCAATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCACACATTCTATACCTACTCCTTCCCGTAGAGTCTTTAATACGCTGTAAGTATTACTATACATGCGCAACCAGACCCTGTGAAAAGTCCAAAATGCACTTTTCTGCATTATTCCCATATTTGATAAA  >  1:375802/1‑275                                                                                                                                                                                                       ACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGACC                                                                                                                                                                               >  1:136900/1‑81                                                                                                                                                                                                                                                                                 CACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAACCAGACCCTGTGAAAAGTCCAAAATGCCATTTTCTGCA                      <  1:358454/160‑1                                                                                                                                                                                                                                                                                 CACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTG                                                                 <  1:561867/117‑1                                                                                                                                                                                                                                                                                 CACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGT                                                                              <  2:145219/104‑1                                                                                                                                                                                                                                                                                 CACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATA                                                                                        <  2:677583/94‑1                                                                                                                                                                                                                                                                                 CACGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAAC                                                                                                  <  1:248073/84‑1                                                                                                                                                                                                                                                                                   CGACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAACCAGACCCTGTGAAAAGTCCAAAATGCCATTTTCTG                        >  1:191277/1‑156                                                                                                                                                                                                                                                                                     ACCAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGT                                                                              >  2:611639/1‑100                                                                                                                                                                                                                                                                                       CAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAACCAGACCCTGTGAAAAGTCCAAAATGCCATTTTCTGCATT                    <  2:191274/156‑1                                                                                                                                                                                                                                                                                       CAGTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGC                                                                                                                                 >  1:121455/1‑47                                                                                                                                                                                                                                                                                         GTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTA                                                                          <  1:611648/100‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                      GTGCCACCGAGTCCCGAGAGCAGGCATGAAAACCACAATAGCCACGGTTCGTGGGCGATACCCATTGTGGCGAATCCGGCGGCGCGCATCAGCATACCGGTAACAATCATCGGTTTGGCACCAAAGCGGTCGGCAATTGCACCGCCGAAAATACCCAGACCTTGCTGAATAAATTGGCGTAGACCGAGAGCAATACCGACCATGACGGCGGCCCAGCCCATTTGATCAACGAAGCGGATAGAGATCAGCGGGAAGACAACAAAGAACCCCAGCACGACCAG‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  CP009273/1120442‑1120722 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑gcacgaccagTCGGTCTGTGGTTAAGCGCACTTTTGGCACGTTACTGCGATAGCCAAACATTCTATACCTACTCCTTCCCGTAACGTCTTTAATACGCTGTAAGTATTACTATACCTGCGCAACCAGACCCTGTGAAAAGTCCAAAATGCCATTTTCTGCATTATTCACATATTTGATAAA  <  CP009273/1121068‑1120898

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 10 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ 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.