New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3583428 =	NA (NA)	19 (1.230)	17/306	0.0	100%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	= 4542049	0 (0.000)					coding (13/597 nt)	fimE	regulator for fimA

CACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGG  >  NC_000913/4541825‑4542239                                                                                                                                                                                                                                 |                                                                                                                                                                                               cACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgattt                                                                                                                                                                       <  1:93974‑M2/250‑26 (MQ=255)       aaTCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtat                                                                                                                                                                <  1:20606‑M2/251‑33 (MQ=255)                           caaatcaaTGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGGCCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTAGTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgn                                                                                                                                             >  1:39432‑M2/1‑199 (MQ=255)                                 aaTGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTAGTATGATATTTAATGTAATAGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTAACCGATTGAGGATTCCTATAGGTATTCATTCAAATATTTATCAGTTAGGAGTACTACTATTGTGAGTAAACGTAggtgatgatgccaccttactgatttagtgaatgatggtgtttttgaggtgatccagtg                                                                                                                                      <  1:249450‑M2/251‑59 (MQ=255)                                       aaTAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTAATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatg                                                                                                                                                                                         <  1:314691‑M2/194‑8 (MQ=255)                                                                    attttTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagc                                                                                                   >  1:97899‑M2/1‑158 (MQ=255)                                                                                                cTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATATATTGGGCTCATTTTGACCGCATGAGGTTTCCTATCGGTCTTCATTCCACTATATCTCAGTTAGGCGTACTACTATTGTGAGTAAACGTCggtgatgctgccaccttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaa                                                                        <  1:195783‑M2/250‑121 (MQ=255)                                                                                                      gCCACATCACTCCGTGTGTGGTTATCTTTTTATCTAGTGGGCTAATTTTGACCGATTGAGGTTTCCTAGAGGTATTCATTCAAATATATCGCAGTTAGAAGTACTACTATGGTGAGTAAACGTCggtgatg                                                                                                                                                                                         >  1:126538‑M2/1‑124 (MQ=255)                                                                                                                                 ttttATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacgtactgatttagtgtatgatggtgtttttga                                                                                                                                                  >  1:96768‑M2/1‑97 (MQ=255)                                                                                                                                                tAATTTTGACCGATTGAGGTTTCCTATATGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTTGGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgatgtgctccaatggcttctgtttctaccagctggcgcttctgttcagttactgacggggtgttgcgtgacggcaaaagcaccgccggacatcagcgctatctctgctctc                                     >  1:57486‑M2/1‑82 (MQ=255)                                                                                                                                                                 ggTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgcagttcac      <  1:17067‑M2/251‑187 (MQ=255)                                                                                                                                                                      ccTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaa                 >  1:6181‑M2/1‑60 (MQ=255)                                                                                                                                                                      ccTATAGGTATTCATTAAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggccatcaccgctatctctgctctcactgccgtaaaacctggcaactgcagttcacttac  <  1:77338‑M2/250‑191 (MQ=255)                                                                                                                                                                            ggTNTTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccantggntgctnttnctatcagctgtccctnctgttcagctactgacgggggggtgcgtaacggcaaaagcaccgnngnnnancagcgcta                                                >  2:249527‑M2/1‑54 (MQ=255)                                                                                                                                                                            ggTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaaagcaccgccggacatcagcgcta                                                <  1:249527‑M2/198‑145 (MQ=255)                                                                                                                                                                                      caAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcgtaacggcaaacgcaccgcc                                                              <  1:231055‑M2/174‑131 (MQ=255)                                                                                                                                                                                                               actaTTGTGAGTAAACGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcagctactgacggggtggtgcttaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgc                                >  1:144131‑M2/1‑19 (MQ=255)                                                                                                                                                                                                                ntatTGTGAGTAAACGTCggtgatgctgccaacttaccgctttagtgtatgatggtgcttttccggcgctccagaagcttctgtttctatcagctgtccctcctgttaagctactgacggggtggcgcgtaacggcaaaagcaccgccggacatcagcgctatctctgctctcactgccgtaaaacatggcaactgc             <  1:69923‑M2/196‑180 (MQ=255)                                                                                                                                                                                                                              cGTCggtgatgctgccaacttactgatttagtgtatgatggtgtttttgaggtgctccagtggcttctgtttctatcagctgtccctcctgttcag                                                                                                    >  1:171241‑M2/1‑4 (MQ=255)                                                                                                                                                                                                                                 |                                                                                                                                                                                               CACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGG  >  NC_000913/4541825‑4542239

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.