Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
JC JC	NC_000913	4,542,223	IS1 (–) +9 bp	60.7%	coding (187‑195/597 nt)	fimE →	regulator for fimA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	3583428 =	NA (NA)	55 (0.580)	49/176	NT	57.8%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	4542223 =	36 (0.420)					coding (187/597 nt)	fimE	regulator for fimA
*	?	NC_000913	= 3584195	NA (NA)	56 (0.590)	46/176	NT	58.2%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	= 4542231	36 (0.420)					coding (195/597 nt)	fimE	regulator for fimA

CAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3583525‑3583428 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTAACTGGAAAGG  >  NC_000913/4542223‑4542320                                                                                                                                                                                                      CAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCC                                                                                                   >  1:1988743/1‑99    TAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCC                                                                                                <  2:171759/99‑1    TAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCC                                                                                                >  2:2266192/1‑99       CTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGAC                                                                                             <  1:2306109/99‑1        TGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACT                                                                                            <  1:317364/99‑1        TGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACT                                                                                            <  2:2498135/99‑1           ACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAA                                                                                         >  1:76167/1‑99           ACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAA                                                                                         <  2:1881205/99‑1            CAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAG                                                                                        >  1:739245/1‑99                 GGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGG                                                                                   <  2:1368343/99‑1                  GGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGA                                                                                  <  1:2322246/99‑1                  GGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTAGCAGCATCACCCGCCGACTGAAGAACGGA                                                                                  >  2:2438743/1‑99                   GACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCGTCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGAT                                                                                 <  2:75496/99‑1                     CAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTT                                                                               >  2:2248847/1‑99                      AGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTT                                                                              <  2:279069/99‑1                       GCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTC                                                                             <  1:633368/99‑1                          GATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTAC                                                                          >  1:2174812/1‑99                            TAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCG                                                                        >  1:1362338/1‑99                                AACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCA                                                                    >  1:469331/1‑99                                 ACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCAC                                                                   >  1:1515663/1‑99                                    GAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCG                                                                >  1:2199229/1‑99                                    GAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCG                                                                <  1:296547/99‑1                                     AAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGT                                                               <  2:934330/99‑1                                      AGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTT                                                              <  1:431559/99‑1                                      AGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTT                                                              >  2:1671204/1‑99                                         CACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACG                                                           >  2:479562/1‑99                                          ACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGT                                                          <  1:1913242/99‑1                                            TGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTT                                                        <  2:1600052/99‑1                                             GGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTT                                                       >  2:2108904/1‑99                                             GGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTT                                                       <  2:2146810/99‑1                                                GCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGAT                                                    <  1:1868375/99‑1                                                  ACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGA                                                  >  2:1633893/1‑99                                                   CCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAG                                                 <  1:304787/99‑1                                                   CCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAG                                                 <  1:2092354/99‑1                                                   CCTCAAAAACACCATCATACACTAAATCAGAAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAG                                                 >  2:2073223/1‑99                                                      CAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGT                                              >  1:530368/1‑99                                                        AAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGA                                            >  1:23233/1‑99                                                        AAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGA                                            >  1:561590/1‑99                                                             ACCATCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCG                                       >  2:714766/1‑99                                                                 TCATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGA                                   >  2:1241675/1‑99                                                                  CATACACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAA                                  <  2:1688275/99‑1                                                                       ACTAAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTG                             >  1:1719084/1‑99                                                                          AAATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGAC                          <  1:1430260/99‑1                                                                            ATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCC                        >  2:1955104/1‑99                                                                            ATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCC                        <  1:1648383/99‑1                                                                            ATCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCC                        >  1:1480661/1‑99                                                                             TCAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCA                       >  2:1140311/1‑99                                                                              CAGTAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAG                      <  1:1844285/99‑1                                                                                 TAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAA                   >  1:1843133/1‑99                                                                                 TAAGTTGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAA                   >  1:645302/1‑99                                                                                      TGGCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGC              >  2:2477311/1‑99                                                                                        GCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCTTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTA            >  2:612004/1‑99                                                                                        GCAGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTA            <  2:1996582/99‑1                                                                                          AGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTAAC          <  2:352421/99‑1                                                                                          AGCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTAAC          <  2:637481/99‑1                                                                                           GCATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTAACT         <  1:548754/99‑1                                                                                            CATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTAACTG        <  1:2507105/99‑1                                                                                             ATCACCCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTAACTGG       >  2:333952/1‑99                                                                                                  CCGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTAACTGGAAAGG  <  1:2159790/99‑1                                                                                                                                                                                                      CAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGGCAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3583525‑3583428 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑CGCCGACTGAAGAACGGATTTTCTACCGTTCACCCGTTACGTTTTGATGAGCGTGAAGCCGTGGAACGCTGGACCCAGGAACGTGCTAACTGGAAAGG  >  NC_000913/4542223‑4542320

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ 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.