New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3583428 =	NA (NA)	30 (0.710)	27/490	0.4	100%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	= 4542049	0 (0.000)					coding (13/597 nt)	fimE	regulator for fimA

AAGCAACTGGAAGTTAATCCACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCT  >  NC_000913/4541806‑4542292                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                    aaGCAACTGGAAGTTAATCCACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatg                                                                                                                                                                                                                                              >  1:137828‑M2/1‑244 (MQ=255) aaGCAACTGGAAGTTAATCCACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgat                                                                                                                                                                                                                                               >  1:365805‑M2/1‑244 (MQ=255)        tGGAAGTTAATCCCCTGCAAACTATTGTTATATTGAATCAAATCAATGAAAATAGCTCTTGTCCCATCAGTGATATTTTATTTTTGTCTGATATTTAATGTAATTGACTGATAGCCACATAACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTCATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAACTATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgcca                                                                                                                                                                                                                                        <  2:415714‑M2/250‑14 (MQ=255)                    cACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgattta                                                                                                                                                                                                                           >  1:372649‑M2/1‑225 (MQ=255)                               aTTTTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTGCTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgat                                                                                                                                                                                                                  >  1:403985‑M2/1‑214 (MQ=255)                                             tcaaatcaaTGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgc                                                                                                                                                                                                  <  2:384374‑M2/251‑52 (MQ=255)                                                  tcaaTGAAAATAGATGTTGTCAAATCAGTGCTATTTTATTTTTGAATGATATTTCATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctcc                                                                                                                                                                                               <  1:159646‑M2/249‑55 (MQ=255)                                                        aaaaTAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactggtttagtgtatgatggtgtttttgaggtgctccagtggctt                                                                                                                                                                                       >  2:78663‑M2/1‑189 (MQ=255)                                                        aaaaTAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggctt                                                                                                                                                                                       <  1:138320‑M2/251‑63 (MQ=255)                                                                    gtCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatc                                                                                                                                                                            <  2:143309‑M2/250‑74 (MQ=255)                                                                      cacaTCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagc                                                                                                                                                                         >  1:266204‑M2/1‑175 (MQ=255)                                                                                                 gATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggg                                                                                                                                              >  2:412897‑M2/1‑148 (MQ=255)                                                                                                  atatTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacgggg                                                                                                                                             >  1:42487‑M2/1‑147 (MQ=255)                                                                                                                  actaatcgccacatcACTACGAGAGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGCTTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGCGTACTACTATTGTGAGTAAACGTCggtgatgctgcccacttactgatttagtgtatgatggtgtttttgaggtgctcaagtggcttctgattctatcagatgtccctactgttccgctactgacggggtggtgcgtaacggca                                                                                                                              <  2:292137‑M2/243‑120 (MQ=255)                                                                                                                     gATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTGTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaa                                                                                                                           >  2:85736‑M2/1‑128 (MQ=255)                                                                                                                       tAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagc                                                                                                                         <  1:175279‑M2/250‑125 (MQ=255)                                                                                                                                                                    aaTTTTGACCGATTGAGGTTTCCTATAGGTATTCAGTCAAATATATCTCAGTTAGGAGTACTTCTATTGTGAGTAAACGTCggtgatgctgccaacttactgattgagtgtatgatggtgtttttttggtgctccagtggctgttgtttcaatcagctggccctccggtgcagctactgacggtggggtgcgtaacggcaaatgcaccggcggacatgatcgctatctctgctctcactgccgtaaaacat                                                                           >  1:420357‑M2/1‑81 (MQ=255)                                                                                                                                                                         tgagcgacttaatgtccctataggtcttcattcaACTCTATCTCAGTTAGGAGTACTACTATTGTGAGTAAAAGTCggtggtgctgccaacttactgatttagtgtatgatggggattttgaggtgctccagtggcttctgcttctatcagctgtccctcctgttcagctactgacggggtggagcggaacggctaaagcaccgccggacatcagagctatctctgctctcactgccgtaacacaaggaa                                                                       <  2:146481‑M2/234‑175 (MQ=255)                                                                                                                                                                            ccGATTGAGGTTTCCTATAGGAATTGATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGCAAACGTCggggatgcagccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacctggccactc                                                                   <  2:429476‑M2/251‑179 (MQ=255)                                                                                                                                                                             cgtgtgaggTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACAATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgttccagtggcttctggtgctatcagctgtccctcctgttcagctacggacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgc                                                                  >  2:67338‑M2/5‑72 (MQ=255)                                                                                                                                                                              gATTGAGGTTTCCTAAAGGTATTCCTTCAAATATATATCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgc                                                                  <  1:164226‑M2/250‑180 (MQ=255)                                                                                                                                                                                   aGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttc                                                             <  2:344496‑M2/250‑185 (MQ=255)                                                                                                                                                                                                   ttcattcaAATATATCTCCGTTAGCAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttcacttacaccgcttctc                                             <  2:41409‑M2/250‑201 (MQ=255)                                                                                                                                                                                                                      gTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttcacttacaccgcttctcaccccggtacgcaccagaa                          <  2:36142‑M2/250‑220 (MQ=255)                                                                                                                                                                                                                       ttAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttcacttacaccgcttctcaacccggtacgcaccagaaa                         <  2:63632‑M2/250‑221 (MQ=255)                                                                                                                                                                                                                         aGGAGTACTAGTATTGTGAGTAAACGTCggagatgctgccgacttactgatttagtgaatgatggtgtttttgaagtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgacggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttcacttacaccgcttctcaacccggtacgcaccagaaactc                      <  2:73528‑M2/251‑224 (MQ=255)                                                                                                                                                                                                                         aGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttcacttacaccgcttctcaacccggtacgcaccagaaaatc                      <  1:362444‑M2/251‑224 (MQ=255)                                                                                                                                                                                                                               actactATTGTGAGAAAACGTCggtgatgctgcaaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttcacttacaccgcttctcaacccggtacgcaccagaaaatcattgat                <  1:335117‑M2/251‑230 (MQ=255)                                                                                                                                                                                                                                   ctaTTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctcccgtggcttctgtttctatcagctgtccatcctgttcagctactgacggggtggtgcgtaacggcacaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttcacttacaccgcttctcaacccggtacgcaccagaaaatcattgctatgg            <  1:216965‑M2/251‑234 (MQ=255)                                                                                                                                                                                                                                             tAAACGTCggtgatgctgccaacttcctgatttagtgtctgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcacctgcagttcacttacaccgcttctcaacccggtacgcaccagaaaatcattgatatggccatgaatgg  <  2:386231‑M2/251‑244 (MQ=255)                                                                                                                                                                                                                                                    |                                                                                                                                                                                                                                                    AAGCAACTGGAAGTTAATCCACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCT  >  NC_000913/4541806‑4542292

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ 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.