New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	CP009273	1235328 =	38 (0.990)	4 (0.110)	4/294	NT	12.4%	coding (994/1071 nt)	dadX	alanine racemase, catabolic, PLP‑binding
	?	CP009273	1236074 =	21 (0.580)					coding (1454/1737 nt)	cvrA	putative cation/proton antiporter

AACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGTGCCGCAATACGCGTCTCTTTTGGCATATGCAAATCGCGCAGTGCCGCGCCCACGCACCATTTATCGGCACTCAATTGATAAACAAACTGCTCCCACGGATTTTCCGGATGAATATCCAGGCCAACGCGTGACACCGGACGTC  >  CP009273/1235834‑1236335                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                                                      aaCACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGNTGCTTATCACGTTATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATcgcg                                                                                                                                                                                                                                     <  1:659961/275‑1 (MQ=255) aaCACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCCGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGCGAATGAAGTCACCAACGAAGCGTTGATCAAGCACCACCTGCGGCGACGGTCTTAACAGTTTACCgctgccccttt                                                                                                                                                                                                                                            >  2:373654/1‑258 (MQ=255)         aTTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGAc                                                                                                                                                                                                                             <  1:93170/275‑1 (MQ=255)                    tctcGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTacacac                                                                                                                                                                                                                  <  1:43414/275‑1 (MQ=255)                                   tccatccttttaatggacactatcatgggcaatggctctgtcacattaacaactacagttgctgaccagccggatggatgatttttttgcacccagaagacgttgcctccgatccggcttacaacaagttacaccgtcacaaccgggacgcgtagcgccagcgcgcacatcaacgcatagcccaccgttccggcagcggcggcgacTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATCACACACAACACAACGCCt                                                                                                                                                                                                      >  1:239944‑M2/207‑272 (MQ=255)                                                           ggTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGNCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGTATTCTTGCAGTCGGGTGCTGCCGGTAGGa                                                                                                                                                                           <  1:502592/275‑1 (MQ=255)                                                            gTCACCGACAACCGGTGCCTCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAAAAGCGTTGAGCCAGAGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGAGCGCGTTCCCGACCAATTACACACAACACATCGCCtt                                                                                                                                                                                                     >  1:584112/1‑248 (MQ=255)                                                                 aatggctctgtcacattaacaactacagttgctgaccagccggatggatgatttttttgcacccagaagacgttgcctccgatccggcttacaacaagttacaccgtcacaaccgggacgcgtagcgccagcgcgcacatcaactcatagcccaccgttccggccgcggcggccacTGGCTGCACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACAAATCGCCTTCGCGCAGTCgggggcggccgggggggtggag                                                                                                                                                                      >  2:183464‑M2/177‑264 (MQ=255)                                                                        cgttGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACAGCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGt                                                                                                                                                              <  1:373660/272‑1 (MQ=255)                                                                          gtcacattaacaactacagttgctgaccagccggatggatgatttttttgcacccagaagacgttgcctccgatccggcttacaacaagttacaccgtcacaaccgggacgcgtagcgccagcgcgcacatcaactcatagcccaccgttccggcagcggcggcgacTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTa                                                                                                                                                            <  1:183467‑M2/108‑1 (MQ=255)                                                                            aacagtcacaacaccagttgctgcccagtcgtatgtatgatttttttgcacccagaagacgtggcctccgatccggcttacaacaagttacaccgtcacaaccgggacgcgtagcgccagcgcgcacatcaactcatagcccaccgttccggcagcggcggcgacTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGt                                                                                                                                                              <  2:239939‑M2/106‑1 (MQ=255)                                                                                                                   tgctgcTTATCACGATATTCTCGAACGTCGTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACNCATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCAc                                                                                                                                                        >  1:490199/1‑238 (MQ=255)                                                                                                                                       tcGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTcc                                                                                                                                                                                                                                 >  1:329744/1‑145 (MQ=255)                                                                                                                                           ccGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGAc                                                                                                                                                                                                                             <  2:329738/145‑1 (MQ=255)                                                                                                                                            cgtcgcccAAGCCAGTTATCAGCGCCACATCCGCATGTTTCGCGCGGGCTTGGGGAATGAAGGCCCCATAGAAGCGTTGCACCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGCTCCCGACCAATTACACACAACACATCGCCTGCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGTGCCGCAATACGCGTCTCTTTTGGCATATGCAAATCGCGCAGTGCCGCGCCCACg                                                                                          <  2:650369/269‑1 (MQ=255)                                                                                                                                            cGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGt                                                                                                                                                              <  1:7630/207‑1 (MQ=255)                                                                                                                                              tCTTCCAGGCCATATATCAGCGCAACATCGGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGTCCAATTACACACAACACATCGCCTTCGCGCAGTCGGACGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGAGCAGCAATAAGCGTCTCTTAGGGCAGATGCACATCGCGCATTGCCGCGccaccgc                                                                                         >  2:298801/1‑269 (MQ=255)                                                                                                                                                         atatatCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTcc                                                                                                                                                                                                                                 >  1:39732/1‑127 (MQ=255)                                                                                                                                                             atCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGAc                                                                                                                                                                                                                             <  2:39732/127‑1 (MQ=255)                                                                                                                                                                  cgcAACATCCGCATATTTGGCGCTGGCGTCGAGAATGATGTCACCAAAGAAGCGTTGATACAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCggg                                                                                                                                                                                         >  1:424905/1‑158 (MQ=255)                                                                                                                                                                                                    aTGACGTCACCTAAGAAGCTTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGTGCCGCAATACGCGTCTCTTTTGGCATATGCAAATCGCGCAGTGCCGCGCCCACGCACCATTTATCGGCACTCAATTGATAAACAAACTGCTCCCACGGATTTTCCGGAt                                   <  1:319767/274‑1 (MQ=255)                                                                                                                                                                                                     tGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACTGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGTGCCGCAGTACGCGTCTCtt                                                                                                                             >  1:477447/1‑183 (MQ=255)                                                                                                                                                                                                     tGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACa                                                                                                                                                  >  1:354615/1‑162 (MQ=255)                                                                                                                                                                                                                           aTCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGc                                                                                                                                                                                                        >  1:532777/1‑86 (MQ=255)                                                                                                                                                                                                                               aGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTc                                                                                                                                                                                                    <  2:532769/86‑1 (MQ=255)                                                                                                                                                                                                                                     aCCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGTGCCGCAATACGCGTCTCTTTTGGCATATGCAAATCGCGCAGTGCCGCGCCCACGCACCATTTAGCGGCACTCAATTGATAAACAAACTGCTCCCACGGATTTTCCGGATGAATATCCAGGCCAACGCGTGACACCGGACGTc  >  1:686423/1‑274 (MQ=255)                                                                                                                                                                                                                                           ggcgacTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGTGCCGCAATACGCGTCTCTTTTGGCATATGCAAATCGCGCAGTg                                                                                                     >  1:115025‑M2/7‑169 (MQ=255)                                                                                                                                                                                                                                               acTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGTGCCGCAATACGCGTCTCTTTTGGCATATGCAAATCGCGCAGTGccga                                                                                                 <  2:115024‑M2/167‑2 (MQ=255)                                                                                                                                                                                                                                                 |                                                                                                                                                                                                                                                                      AACACTTCATTATCTTCTTTCTCGGCCACCGTCCAGATCATCCCGGCAAACTCTACCTGGTCACCGACAACCGGTGCCGCGCCTAACAACTGCTGGACAATTTCACCCAGCGTTTGCTGCTTATCACGATATTCTCGCCCGTCTTCCAGGCCATATATCAGCGCAACATCAGCATATTTGGCGCTGGCTTCGAGAATGAAGTCACCAAAGAAGCGTTGATCCAGCGCGACCGGCGGCGACTGGCTGAACAGTTTACCGAGCGCCGGAAGATCGCGTTCCCGACCAATTACACACAACACATCGCCTTCGCGCAGTCGGGTGCTGCCGGTAGGATGAAGCAACTGGTTATCACGAAACAGTGCCGCAATACGCGTCTCTTTTGGCATATGCAAATCGCGCAGTGCCGCGCCCACGCACCATTTATCGGCACTCAATTGATAAACAAACTGCTCCCACGGATTTTCCGGATGAATATCCAGGCCAACGCGTGACACCGGACGTC  >  CP009273/1235834‑1236335

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 9 ≤ ATCG/ATCG < 17 ≤ 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.