Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC JC	NC_000913	4,542,161	IS5 (+) +4 bp	6.7%	coding (125‑128/597 nt)	fimE →	regulator for fimA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3652036 =	NA (NA)	6 (0.050)	6/176	NT	5.2%	noncoding (1195/1195 nt)	IS5	repeat region
	?	NC_000913	4542161 =	105 (0.960)					coding (125/597 nt)	fimE	regulator for fimA
*	?	NC_000913	= 3653230	NA (NA)	9 (0.080)	8/176	NT	7.6%	noncoding (1/1195 nt)	IS5	repeat region
	?	NC_000913	= 4542164	105 (0.960)					coding (128/597 nt)	fimE	regulator for fimA

GAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3653142‑3653230 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAATCTCTGGCTCCCGTTGCCCCGTAACAAACCGCCTGCATCATGGCCTGAACTT  <  NC_000913/4542164‑4542068                                                                                                                                                                                            GAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAATACGCA                                                                                         <  1:2179050/99‑1                  TCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAATACGCATCCCATGCCGATATGCC                                                                        <  1:2568606/99‑1                                   CTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATA                                                       <  1:2221123/99‑1                                    TATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAA                                                      <  2:1596839/99‑1                                    TATGGCTCCACATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAA                                                      <  2:1748371/99‑1                                           CCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAATCTCTGG                                               <  1:2027920/99‑1                                               ATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAATCTCTGGCTCC                                           >  2:3021811/1‑99                                                         TGATCTCATATCAGGGACTTGTTCGCACCTTCCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAATCTCTGGCTCCCGTTGCCCCG                                 >  1:1357124/1‑99                                                                 TATCAGGGACTTGTTCGCACCTTCCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAATCTCTGGCTCCCGTTGCCCCGTAACAAAC                         <  1:657831/99‑1                                                                                      TTCCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAATCTCTGGCTCCCGTTGCCCCGTAACAAACCGCCTGCATCATGGCCTGAAC    >  2:435110/1‑99                                                                                        CCCTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAATCTCTGGCTCCCGTTGCCCCGTAACAAACCGCCTGCATCATGGCCTGAACTT  <  1:2928314/99‑1                                                                                                                                                                                            GAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/3653142‑3653230 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CTAATACGCATCCCATGCCGATATGCCAACAGAATAAGACAATAATCTCTGGCTCCCGTTGCCCCGTAACAAACCGCCTGCATCATGGCCTGAACTT  <  NC_000913/4542164‑4542068

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 40 ≤ 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.