New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3583428 =	NA (NA)	14 (0.640)	13/490	0.6	100%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	= 4542158	0 (0.000)					coding (122/597 nt)	fimE	regulator for fimA

AAGTTATGTAATGAAGTTAGTATTCTTTTTAAGAATCAACCTGATTATCTTACTTTTTTAAGAGCAATGGATGGATTCGAAGTTAATGGATTACGATTATTTAGCCTCTCGATTCCAGAACCTTCAGTTAAAAACCTTTTTGCCGTAAATGAATTTTATAGAAATAATGATGATTTCATAAACCCTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGC‑GTTGG  >  NC_000913/3583179‑3583676                                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                                          aaGTTATGTAATGAAGTTAGTATTCTTTTTAAGAATCAACCTGATTATCTTACTTTTTTAAGGGCAATGGATGGATTCGAAGTTAATGGATTACGATTATTTAGCCTCTCGATTCCAGAACCTTCAGTTAAAAACCTTTTTGCCGTAAATGAATTTTATAGAAATAATGATGATTTCATAAACCCTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAgg                                                                                                                                                                                                                                                          <  1:204373/251‑1 (MQ=255)                                      aaCCTGATTATCTTACTTTTTTAAGAGCAATGGATGGAGTCGAAGTTAATGGATTACGATTATATAGCCTCTCGATTCCAGAACCTACAGTTAAAAACCTTTGTGCCGTAAATGAATATTATAGCAATAATGATGATTTCATAAACCCTGAACTACAAGAACGGTTAGTGATCGGGGAGTATAGCATTTCAATATTTACTTATGACATTAAAGGTTATGCTGCCAACTTACTGATTTAGTGAATGATGgtg                                                                                                                                                                                                                     >  1:156482/1‑251 (MQ=255)                                            aTTATCTTACTTTTTTAAGAGCAATGGATGGATTCGAAGTTAATGGATTACGATTATTTAGCCTCTCGATTCCAGAACCTTCAGTTAAAAACCTTTTTGCCGTAAATGAATTTTATAGAAATAATGATGATTTCATAAACCCTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTg                                                                                                                                                                                                               >  1:77762/1‑251 (MQ=255)                                                     cTTTTTAAAGACCAATGGATGGAATCGCAGTTAACGGCTCACGATTATTTACCCTCTCGATTCCAGACCATTCAGTTCCAAAACTTTTTGCCGTCAATGAATTTTATAGAAATAATGATGATTTCATAAACCCTGATCTACAAGAAAGGTTAGTGATCGGGGATTCTAGCATTTCAATATTCACTTATGCCATTAAAGGCGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTcc                                                                                                                                                                                                      >  2:152790/1‑251 (MQ=255)                                                               agCAATGGATGGATTCGAAGTTAATGGATTACGATTATTTAGCCTCTCGATTCCAGAACCTTCAGTTAAAAACCTTTTTGCCGTAAATGAATTTTATAGAAATAATGATGATTTCATAAACCCTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCt                                                                                                                                                                                            <  1:108663/251‑1 (MQ=255)                                                                                                            ctcGATTCCAGAACCTTCAGTTAAAAACCTTTTTGCCGTAAATGACTTTTATAGAAATAATGATGATTTCATAAACCCTGATATACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGgtggtg                                                                                                                                               >  2:54697/1‑251 (MQ=255)                                                                                                                                             tGCCGTAAATGAATTTTATAGAAATAATGATGATTTCATAAACCCTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAgcg                                                                                                               <  2:77762/250‑1 (MQ=255)                                                                                                                                                      tGAATTTTATAGAAATAATGATGATTTCATAAACCCTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGc                                                                                                     >  1:114359/1‑251 (MQ=255)                                                                                                                                                                                  aTAAACCCTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGc                                                                         <  2:175303/251‑1 (MQ=255)                                                                                                                                                                                       ccctgctataaaaGAACGGTTAGTGATCGGGGACTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTc                                                                    >  2:153050/12‑251 (MQ=255)                                                                                                                                                                                       cccTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTTCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCGCCTGTTCAGCTACTTACGGGGTGGTGCTTATCGGGAAAGGCATCGCTGGACATCAGCGCTATCTCGGCTCACACTGCCTTAAATCATTGCAACTGCAGTTc                                                                    <  2:206545/251‑1 (MQ=18)                                                                                                                                                                                                                  cGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACg                                         >  1:161572/1‑251 (MQ=255)                                                                                                                                                                                                                                tttCAATATTTCCTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCAt                           >  1:172782/1‑251 (MQ=39)                                                                                                                                                                                                                                                       aaaGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTATGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAACATCATTGATATGGCCATGAATGGC‑GTTg   >  1:218635/1‑251 (MQ=11)                                                                                                                                                                                                                                                        aaGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCC‑TCCTGTTCAGCTACTGACGGGGGGGTGCGTAAAGGCAAAAGCACCGCCGGACATCAGCGCCAACTCTGGCCTCACCGCCGTAAAACATGGCAACCGCAGTTCCCTTACACCGCCTCTCAACCCGGGACGCACCAGAAAATCATTGATAATGCCATGAATGGCCGTTgg  >  1:188267/1‑251 (MQ=11)                                                                                                                                                                                                                                                          |                                                                                                                                                                                                                                                          AAGTTATGTAATGAAGTTAGTATTCTTTTTAAGAATCAACCTGATTATCTTACTTTTTTAAGAGCAATGGATGGATTCGAAGTTAATGGATTACGATTATTTAGCCTCTCGATTCCAGAACCTTCAGTTAAAAACCTTTTTGCCGTAAATGAATTTTATAGAAATAATGATGATTTCATAAACCCTGATCTACAAGAACGGTTAGTGATCGGGGATTATAGCATTTCAATATTTACTTATGACATTAAAGGTGATGCTGCCAACTTACTGATTTAGTGTATGATGGTGTTTTTGAGGTGCTCCAGTGGCTTCTGTTTCTATCAGCTGTCCCTCCTGTTCAGCTACTGACGGGGTGGTGCGTAACGGCAAAAGCACCGCCGGACATCAGCGCTATCTCTGCTCTCACTGCCGTAAAACATGGCAACTGCAGTTCACTTACACCGCTTCTCAACCCGGTACGCACCAGAAAATCATTGATATGGCCATGAATGGC‑GTTGG  >  NC_000913/3583179‑3583676

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ 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.