Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	4,541,967	IS5 (–) +4 bp	intergenic (+408/‑67)	fimB → / → fimE	Type 1 fimbriae regulatory protein FimB/regulator for fimA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3652036 =	NA (NA)	28 (0.890)	26/480	0.3	100%	noncoding (1195/1195 nt)	IS5	repeat region
	?	NC_000913	= 4541970	0 (0.000)					intergenic (+411/‑67)	fimB/fimE	Type 1 fimbriae regulatory protein FimB/regulator for fimA
*	?	NC_000913	= 3653230	NA (NA)	16 (0.510)	15/480	1.0	100%	noncoding (1/1195 nt)	IS5	repeat region
	?	NC_000913	4541967 =	0 (0.000)					intergenic (+408/‑70)	fimB/fimE	Type 1 fimbriae regulatory protein FimB/regulator for fimA

GGTTGCTGAAAAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3652279‑3652036 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATCTATTTTCATTGATTTGATTCAATATAACAATAGATTGCAGTGGATTAACTTCCAGTTGCTTAAAAAATAAAGAAAAAAGTGCGGAAACAGGAGATTTTAAGTGATGTGTAAATTT  <  NC_000913/4541970‑4541752                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 GGTTGCCGAAAAACGAGAACCAACAGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATTATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGTCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGTCTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCC                                                                                                                                                                                                                      <  2:309578/251‑1    TGCTGAAAAACTATAACCAACTGTCGATGGTATTCACGCTTGCCAACCAGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGACTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAA                                                                                                                                                                                                                    <  1:79177/250‑1    TGCTGAAAAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAA                                                                                                                                                                                                                    <  2:164601/250‑1         AAAAACGATAACCAACGTGCGATGTTATGCACGATGGCCACACGGTGTCGGGCGGACCAAATGATACGACAGTGGGAGAGATCGCACTATAAACTGGGGATAACGACTTAAATGGCGAAGAAACGGTATAAATAGGATGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATA                                                                                                                                                                                                              <  1:76771/251‑1           AAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAA                                                                                                                                                                                                            <  1:3537/251‑1                             GATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAACCTGGGGCTAACGCCTTAAATGGCGAAGCAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATCACCACACACGG                                                                                                                                                                                           >  1:34964/1‑250                                  TATTCACGCTGGCCATCCTGTTTCGGGCGGACCAAATGATACGTCATTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCAACTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGA                                                                                                                                                                                      <  1:291864/250‑1                                                 ACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAAACGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAA                                                                                                                                                                      <  1:23381/251‑1                                                          GGGCGGACCAAATGATACGGCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAA                                                                                                                                                             <  2:138818/251‑1                                                                        ATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAA                                                                                                                                               <  1:272779/251‑1                                                                           gGTCAGTGGGAGAGATCTCACTAAAAAAGGGGGATAACGCCTTAAATGGCGAAGAAACGGTCAAAATAGGCTGATTAAATGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAAGGACTGAGTCAGCCGAGAAGAATTTCTCCGCTTATTCGCACCTTCCGTAGCCCAATAGATAAAAAGATAAACACCCTCGGAGTGATTTGGCTATCAGTCAATTACAGTAAATATCATACAAAAATAA                                                                                                                                            <  2:326136/250‑1                                                                                      GAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCA                                                                                                                                                       <  1:160301/229‑1                                                                                      GAGATATCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATCTCA                                                                                                                                                       >  2:160301/1‑229                                                                                       AGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGAT                                                                                                                                <  1:200947/251‑1                                                                                       AGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTGCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGAT                                                                                                                                <  1:141560/251‑1                                                                                            TCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGAC                                                                                                                           >  1:237365/1‑251                                                                                                  AAAACTGGGGATAAAGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGAGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATC                                                                                                                     <  2:32024/251‑1                                                                                                                               AGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATCTATTTTCATTGATTTGATTCAATATAACA                                                                                        <  1:234977/251‑1                                                                                                                               AGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTG                                                                                                                                                                                  <  1:168830/161‑1                                                                                                                               AGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCACAATAGATAAAAAGATAACCACACACGGAGTGATGTG                                                                                                                                                                                  >  2:168830/1‑161                                                                                                                                                        AAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATTACTGAGTCAGCCGCGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTAAATTACATTAAATATCATACAAAAATTAAATATCACTGATGTGACAACATCTATTTTCATTGATTTGATTAAATATAACAATATATTGCAGTGGATTAACTTCC                                                                >  2:231037/1‑250                                                                                                                                                           GCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAACCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATCTATTTTCATTGATTTGATTCAATATAACAATAGATTGCAGTGGATTAACTTCCAGTT                                                            >  1:207621/1‑251                                                                                                                                                             ATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCTCACACGGAGTAATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATCTATTTTCATTGATTTGATTCAATATAACAATAGATTGCAGTGGATTAACTTCCAGTTGC                                                          <  1:176722/251‑1                                                                                                                                                                            AATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGATATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCAATGATGTGACAACATCTATTTTCATTGATTTGATTCAATATAACAATAGATTGCAGTGGATTAACTTCCAGTTGCTTAAAAAATAAAGA                                            >  2:139129/1‑250                                                                                                                                                                                GGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATCTATTTTCATTGATTTGATTCAATATAACAAGAGATTGCAGTGGATTAACCTCCAGTTGCTTAAAAAATAAAGAAAAAA                                       <  1:300525/251‑1                                                                                                                                                                                        CATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCAACTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATATATTTTCATTGATTTGATTCATTATAACAATAGATTGCCGTGGATTAACTTCCAGTTGCTTAAAAAATAAAGAAAAAAGTGCGGA                                >  2:283964/1‑250                                                                                                                                                                                           GAAGAAATGAAATGACTGAGTCAGCAGAGACGTATTTCCCCGCTTATTCGCACCTTCCTTAGCCCCATAGATACAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAACTAAAATATCACTGATGGGACAACATCTATTTTCATTGATTTGATTCAATATAACAATAGATTGCAGTGAGTTAAATTCCAGTTGCTTAAAACATAAAGAAAAAAGAACGGAAAC                             >  2:227339/1‑250                                                                                                                                                                                                                     GAGAAGAATTTCCCCGCTTATTCGCACCTTCCTTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATCTATTTTCATTGATTTGATTCAATATAACAATAGATTGCAGTGGATTAACTTCCAGTTGCTTAAAAAATAAAGAAAAAAGTGCGGAAACAGGAGATTTTAAGTGATGTGTAAATTT  <  2:184559/251‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                 GGTTGCTGAAAAACGATAACCAACTGGCGATGTTATTCACGCTGGCCAACCTGTTTCGGGCGGACCAAATGATACGTCAGTGGGAGAGATCTCACTAAAAACTGGGGATAACGCCTTAAATGGCGAAGAAACGGTCTAAATAGGCTGATTCAAGGCATTTACGGGAGAAAAAATCGGCTCAAACATGAAGAAATGAAATGACTGAGTCAGCCGAGAAGAATTTCCCCGCTTATTCGCACCTTCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3652279‑3652036 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑TTAGCCCAATAGATAAAAAGATAACCACACACGGAGTGATGTGGCTATCAGTCAATTACATTAAATATCATACAAAAATAAAATATCACTGATGTGACAACATCTATTTTCATTGATTTGATTCAATATAACAATAGATTGCAGTGGATTAACTTCCAGTTGCTTAAAAAATAAAGAAAAAAGTGCGGAAACAGGAGATTTTAAGTGATGTGTAAATTT  <  NC_000913/4541970‑4541752

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.