New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 3584195	NA (NA)	21 (0.810)	21/492	0.3	100%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	4542042 =	0 (0.000)					coding (6/597 nt)	fimE	regulator for fimA

AGCAACTGGAAGTTAATCCACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAAC  >  NC_000913/4541807‑4542289                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                        ggtgatatggatgacggatggctggccgctgtatgaatcccgcctgaagggaaagctgcacgtaatcagcaagcgatatacgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCtt                                                                                                                                                                                                                                          <  1:172387‑M2/16‑1 (MQ=255)          gatgacggatggctggccgctgtatgaatcccgcctgaagggaaagctgcacgtaatcagcaagcgatatacgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTaa                                                                                                                                                                                                                                  >  1:93296‑M2/227‑250 (MQ=255)                          ccgctgtatgaatcccgcctgaagggaacgctgcacgtaatcagcaagcgatatacgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaacatcggtggagctgcatgacaaagtcatcgggcattatctgcacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCatg                                                                                                                                                                                                                  >  2:115804‑M2/211‑250 (MQ=255)                               gtatgaatcccgcctgaagggaaagctgcacgtaatcagcaagcgatatacgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAg                                                                                                                                                                                                            <  1:205943‑M2/46‑1 (MQ=255)                                      tcccgcctgaagggaaagctgcacgtaatcagcaagcgctatacgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGttt                                                                                                                                                                                                     >  2:100459‑M2/199‑251 (MQ=255)                                                    aaagctgcacgtaatcagcaagcgatatacgcagcgaattgagcggcctaacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACCGGGCCACg                                                                                                                                                                                       >  2:40134‑M2/185‑251 (MQ=255)                                                                aatcagcaagcgatatacgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAgaga                                                                                                                                                                            <  2:238995‑M2/78‑1 (MQ=255)                                                                aatcagcaagcgatatacgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACCGGAGCCAGAGat                                                                                                                                                                           <  2:258777‑M2/79‑1 (MQ=255)                                                                   cagcaagcgatatacgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGatta                                                                                                                                                                         <  1:188372‑M2/81‑1 (MQ=255)                                                                                 cgcagcgaattgagcggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTTCCGGGCAACGGGAGCCAGAGATTATTGTTTTTttctttt                                                                                                                                                          >  2:64861‑M2/156‑248 (MQ=255)                                                                                                ggcataacctgaatctgaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTTTGTTGGCATATCGGCATgg                                                                                                                                           >  1:91749‑M2/141‑251 (MQ=255)                                                                                                                gaggcagcacctggcacggctgggacggaagtcgctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggccttatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTTTTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGa                                                                                                                            >  1:23870‑M2/125‑250 (MQ=255)                                                                                                                     agcacctggcacggctgggacggaagtcgctgtcgttctcaacatcggtggagctgcatgacaaagtcatcgggccttatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGAGTATTATTGAActgtt                                                                                                                      >  1:259448‑M2/120‑249 (MQ=255)                                                                                                                                                 gctgtcgttctcaaaatcggtggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGgaccttgacctt                                                                                          <  1:104253‑M2/160‑1 (MQ=255)                                                                                                                                                             aaaaacggtggagctgcatgacaaagtcatcgggcagtatccgaacataaaaccctatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATGAGTGTCTTAGTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTGGATCTGCATTATCAGGACCTTGAGCTTAATGAAGGTAGa                                                                              <  2:160968‑M2/172‑1 (MQ=255)                                                                                                                                                                      ggagctgcatgacaaagtcatcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAatat                                                                      <  1:1280‑M2/180‑1 (MQ=255)                                                                                                                                                                                        catcgggcattatctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACgg                                                    <  2:114478‑M2/198‑1 (MQ=255)                                                                                                                                                                                                     ctgaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGGATTTTCTACCgttt                                      >  1:48842‑M2/40‑250 (MQ=255)                                                                                                                                                                                                       gaacataaaacactatcaataagttggagtcattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGGTGCGTATTTGTGAACTGCTTGATATGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGGATTTTCCACCGttccc                                    >  2:55769‑M2/38‑249 (MQ=255)                                                                                                                                                                                                                     atcaataagttggagacattaccTAAACGTCGTTATCTTACCGGTAAAGAAGTTAAGGCCATGATGCAGGCGGTTTGTTACGGGGCCACGGGAGCCAGAGATTATTGTCTTTTTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTtg                       >  1:162221‑M2/24‑250 (MQ=255)                                                                                                                                                                                                                                         accTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAAc  <  2:259448‑M2/248‑1 (MQ=255)                                                                                                                                                                                                                                            |                                                                                                                                                                                                                                                        AGCAACTGGAAGTTAATCCACTGCAATCTATTGTTATATTGAATCAAATCAATGAAAATAGATGTTGTCACATCAGTGATATTTTATTTTTGTATGATATTTAATGTAATTGACTGATAGCCACATCACTCCGTGTGTGGTTATCTTTTTATCTATTGGGCTAATTTTGACCGATTGAGGTTTCCTATAGGTATTCATTCAAATATATCTCAGTTAGGAGTACTACTATTGTGAGTAAACGTCGTTATCTTACCGGTAAAGAAGTTCAGGCCATGATGCAGGCGGTTTGTTACGGGGCAACGGGAGCCAGAGATTATTGTCTTATTCTGTTGGCATATCGGCATGGGATGCGTATTAGTGAACTGCTTGATCTGCATTATCAGGACCTTGACCTTAATGAAGGTAGAATAAATATTCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAAC  >  NC_000913/4541807‑4542289

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 17 ≤ 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.