Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	4,542,469	IS1 (+) +9 bp	coding (433‑441/597 nt)	fimE →	regulator for fimA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	1978503 =	NA (NA)	24 (0.660)	23/486	0.5	100%	noncoding (768/768 nt)	IS1	repeat region
	?	NC_000913	4542469 =	0 (0.000)					coding (433/597 nt)	fimE	regulator for fimA
*	?	NC_000913	3583428 =	NA (NA)	24 (0.670)	22/484	0.5	100%	noncoding (1/768 nt)	IS1	repeat region
	?	NC_000913	= 4542477	0 (0.000)					coding (441/597 nt)	fimE	regulator for fimA

CAACGCCATTCATGGCCATATCAATGATTTTCTGGTGCGTACCGGGTTGAGAAGCGGTGTAAGTGAACTGCAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3583675‑3583428 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCACGTTCCTGGGTCCAGCGTTCCACGGCTTCACGCTCATCAAAACGTAACGGGTGAACGGTAGAAAATCCGTTCTTC  <  NC_000913/4542477‑4542231                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CAACGCCATTCATGGCCATATCAATGATTTTCTGGTGCGTACCGGGTTGAGAAGCGGTGTAAGTGAACTGCAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGC                                                                                                                                                                                                                                                      >  1:306420/1‑251        ATTCATGGCCAAATCAATGATTTTCTGTTGCTTACCGGGTTGAGAGGCGGTGTAAGTGAACTGCAGTTGCCATGTTTGACGGCAGTGAGAGCAGAGAGATCGTTGATGTCCGGCGGTGCTTTTGCGTTTACGCACCACCCCGCCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCA                                                                                                                                                                                                                                               <  1:192471/251‑1                  ATATCAATGATTTTCTGGTGCGTACCGGGTTGAGAAGCGGTGTAAGTGAACTGCAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATTTCCGGCGGTGCTTTTGCCGTTACGCACCCCCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCCCCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAG                                                                                                                                                                                                                                     <  1:49408/251‑1                       AATGATTTTCGGGTGCGTACCGGGTTGAGAATCGGTGTAAGTGAACTGCAGTGGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTGGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGC                                                                                                                                                                                                                                <  1:379173/251‑1                               TCTGGTGCGTACCGGGTTGAGAAGCGGTGTAAGTGAACTGCAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCCCCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACGGGAGCACCTCAAAAACACCATCATACCCTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACA                                                                                                                                                                                                                         <  1:294690/250‑1                                  GGTGCGTACCGGGTTGAGAAGCGGTGTAAGTGAACTGCAGTTGTCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTGGCCGTTACGCCCCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACAAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACAT                                                                                                                                                                                                                        <  1:376226/248‑1                                                    AAGCGGTGTAAGTGAACTGCAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTAAGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTAC                                                                                                                                                                                                   >  1:363823/1‑251                                                                       CAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTCCGCCCCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCCCCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCG                                                                                                                                                                                <  1:272228/251‑1                                                                            gcctgttttaaaGGCAGTGAGAGCAGAGATAGCGCTTATTTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCATTCGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTAAAAAACACCACCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCAT                                                                                                                                                                            <  1:197952/238‑1                                                                             CCATGTTTTACGGAAGTGGGAGCAGAGATAGCTCTATTGTCCGGCGGTGCTTTTGCGGTTCCGCACCACCCCGGAGGAAGCCGAACGGGAGGGAAAGCTTAAAGAAACAGAAGCCACTGGAGCACCTAAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCCCCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCG                                                                                                                                                                          <  2:101303/251‑1                                                                                   TTTACGGCAGTGAGAGCAGAGAAAGCGCGGATGTCCGGCGGTGCTTTGGCCGTACCGCCCCACCCCGTCAGTAGCTGACCAGGAGGTACAGTTGATAGAAACAGAAGCCACGGGAGCACCTCAAAAACACCATCAAACACTAAATCAGTAAGTTGG‑CAGCATCGCCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAAT                                                                                                                                                                     <  1:339901/250‑1                                                                                                              CTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGACTAATGCGATAGGCCTGCTGGCGAGAAAGC                                                                                                                                         >  1:91762/1‑251                                                                                                                    TCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGGTAGAAACCGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCCACTTCAATAACGGCATCGCGAATAATGCGAAAGGCCTGCTGGCGAGAAAGCCGACTC                                                                                                                                   >  2:147398/1‑251                                                                                                                                     CGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGCGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGACAGCATGCCTTAACATATGCGGATGAGTCTGCGTTACGATTCCCGCTTCAAAACCGTCATCGCGAATAATGCGATAGGCCTGCTAGCGAGAAAGCCGACTCCAGCGGCGCGAAATAA                                                                                                                   >  2:211487/1‑250                                                                                                                                                         GTAGCTGAACAGGGGGAACAGCGGATAAAAACAAAAGCCACTGGAGCACCTAAAAAACCCCATCATACACAAAACCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAG                                                                                              <  1:194155/251‑1                                                                                                                                                                          actGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCTACAACCACTAAATCAGTAA‑TTGGTCAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCTACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCA                                                                             <  1:176210/248‑1                                                                                                                                                                              CTGATAGAAACAGAAGACACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCCTAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGAGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAAAATAGCGTCAGTCCGGTCAGAGACTTTCCAGTTAGCAAGTT                                                                         >  2:275088/1‑251                                                                                                                                                                                                ACTGGAGCACCTCAGAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCACGTTCCTGGGTCCAGCGTTCCc                                                       >  2:45928/1‑250                                                                                                                                                                                                ACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCACGTTCCTGGGTCCAGCGTTCC                                                        >  1:320097/1‑250                                                                                                                                                                                                             AAAAACCCCATCATACACTAAATCAGAAAGTTGG‑CAGCATCCCCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGATAAATAAATATAGCGTCAGTCCGGTCA                                                                                               <  1:294968/198‑1                                                                                                                                                                                                                          TACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCACGTTCCTGGGTCCAGCGTTCCACGGCTTCACGCTCATCAAAACGTAAC                             >  1:372763/1‑251                                                                                                                                                                                                                          TACACTAAATCAGTAAGTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCACGTTCCTGGGTCC                                                                >  1:205684/1‑216                                                                                                                                                                                                                                          GTTGG‑CAGCATCACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCACGTTCCTGGGTCCAGCGTTCCACGGCTTCACGCTCATCAAAACGTAACGGGTGAACGGTAGAA              >  1:146848/1‑250                                                                                                                                                                                                                                                      CACCCGCCAATTCATAACCGCAAGCATGCCTTAACATATGCGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCACGTTCCTGGGTCCAGCGTTCCACGGCTTCACGCTCATCAAAACGTAACGGGTGAACGGAAGAAAATCCGTTCTTC  >  2:378866/1‑251                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                                  CAACGCCATTCATGGCCATATCAATGATTTTCTGGTGCGTACCGGGTTGAGAAGCGGTGTAAGTGAACTGCAGTTGCCATGTTTTACGGCAGTGAGAGCAGAGATAGCGCTGATGTCCGGCGGTGCTTTTGCCGTTACGCACCACCCCGTCAGTAGCTGAACAGGAGGGACAGCTGATAGAAACAGAAGCCACTGGAGCACCTCAAAAACACCATCATACACTAAATCAGTAAGTTGG‑CAGCATCACC‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  <  NC_000913/3583675‑3583428 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑cCGCCAATTCATAACCGCAAGCATGCCTTAACATATGAGGATGAGTCTGCGTTACGGTTCCAGCTTCAATACCGGCATCGCGAATAATGCGATAGGCCTGCTGGCGAGAAAGCCGACTCCCGCGGCGAGAAATAAATATAGCGTCAGTCCGGTCAGCGCCTTTCCAGTTAGCACGTTCCTGGGTCCAGCGTTCCACGGCTTCACGCTCATCAAAACGTAACGGGTGAACGGTAGAAAATCCGTTCTTC  <  NC_000913/4542477‑4542231

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ 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.