Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	1,590,536	IS2 (+) +5 bp	intergenic (‑535/+314)	ydeT ← / ← hipA	fimbrial usher domain‑containing protein YdeT/serine/threonine‑protein kinase toxin HipA

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	= 1469240	NA (NA)	27 (1.140)	25/496	0.1	100%	noncoding (1/1331 nt)	IS2	repeat region
	?	NC_000913	= 1590540	0 (0.000)					intergenic (‑539/+314)	ydeT/hipA	fimbrial usher domain‑containing protein YdeT/serine/threonine‑protein kinase toxin HipA
*	?	NC_000913	1590536 =	0 (0.000)	27 (1.150)	25/492	0.1	100%	intergenic (‑535/+318)	ydeT/hipA	fimbrial usher domain‑containing protein YdeT/serine/threonine‑protein kinase toxin HipA
	?	NC_000913	= 1651548	NA (NA)					noncoding (706/706 nt)	IS2	repeat region

GGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1469017‑1469240 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAGGTTAAGAAAGTCTGTCGGACAGCTTTAATAAACCCTGCACTTATCTGTTTAGAGCAATTCGGTGTTAGT  <  NC_000913/1590540‑1590293                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCGTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCATAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGAGATGGGTTGTCTGGAGATTCAGGGGGCGAGTCTAGGGAATGAGTCCACTCCGGTATCAG                                                                                                                                                                                                                                 <  1:212175/249‑1   CTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAAT                                                                                                                                                                                                                             >  1:56184/1‑251          CTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACG                                                                                                                                                                                                                      >  1:187661/1‑251                          GGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGG                                                                                                                                                                                                      >  2:55520/1‑251                           GCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACGCCGGTATCAGAAATGGCTACGTCTCAAGGAAGTCAGGC                                                                                                                                                                                                     <  2:144174/251‑1                                                   GGTTCAAAGCGCTGCTGAACAAGTGCTATCGTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATAGTGGTTGTCTGGAGAGGCAGGGGGCCTGGCTAGGGAATGAGTCCACACCGGTATCAGAAATGGCTAGTTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACG                                                                                                                                                                             <  1:110941/251‑1                                                    GTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGATGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCATTGAAGTCAGGCGACAGATGCTGACTGAACATTACG                                                                                                                                                                             >  2:8164/1‑250                                                         AAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTC                                                                                                                                                                        >  1:36875/1‑250                                                                                  TTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGA‑TTCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTC                                                                                                                                                   <  1:241578/245‑1                                                                                        GTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTCGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAA                                                                                                                                          >  1:146866/1‑249                                                                                        GTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGTGGCCAGTCTAGGGAATGAGGCCACGCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACATATGCTGAATGAGCATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAG                                                                                                                                        <  1:22932/251‑1                                                                                         tgtcGTACGCCGTCTGCGGTTCTCCGGCCCTAAGACATCAATCATCTGTGCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCTCTTATTTAAGTGATAGTGGTTGTCTGGAGATGCAGGGGGCCAGTCTAGTGAATGAGTCCACTCCGGTATCAGAAATGGCTACGGCTCAATGAAGTCAGGCGACAGATGCGGAATGAACATTACGATGTCACCACAGCAGCCTATGCGGTCGGTTACGAAAG                                                                                                                                        <  2:152466/246‑1                                                                                                   CGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCT                                                                                                                                                           <  1:181434/221‑1                                                                                                   CGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCT                                                                                                                                                           >  2:181434/1‑221                                                                                                     TCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAACACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTC                                                                                                                            >  1:184502/1‑250                                                                                                               TCCGGCCCTAAGACATCACTCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAAT                                                                                                                  >  2:129389/1‑250                                                                                                                        AAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGA                                                                                                         <  2:6270/250‑1                                                                                                                                                           AAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAG                                                                       <  1:126845/249‑1                                                                                                                                                                     ATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAGGTTAAGAAAGT                                                            <  2:181054/250‑1                                                                                                                                                                        AAGACTATCACTTATTTAAGTGCTCTTGGTTGTCTGGAGATTCAGGGGGACAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAACGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAGGTTAAGAAAGTCTGT                                                        >  2:223035/1‑251                                                                                                                                                                             TATCACTTATTTAAATGCTATTGGCTGTCTGGTGATTCAGGCGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTCCGTCTCAATGAAGTCAGGCGACAGATGCTGCATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCAACCAAGAGAGATATTACCAGGTTAAGAAAGTCTGTCGGAC                                                   >  2:106491/1‑251                                                                                                                                                                                  ccTATTTAAGTGATATTGGTTGTCTGGAAATTCAGGTGGCCAGTCTAGGTAATGAGTCCACTCCGGTATTAGAAATTGCTACGTCGCAATGAAGGCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACATCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGAGAATATTCGCAGATGTTTGGATAGTCACCCAAGAGAGAAATTACCAGGTTAAtaacttcagtcccacagct                                               <  2:138412/248‑20                                                                                                                                                                                        TAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAGGTTAAGAAAGTCTGTCGGACAGCTTTAATA                                         >  1:63707/1‑250                                                                                                                                                                                               TATTGGTTGTCTGGAGATTCAGGGGGCCAGTATAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAGGGTAAGAAAGTATGTCGGACAGCTTTAATAAACCCTGC                                 >  1:152870/1‑251                                                                                                                                                                                                     TTGTCTGGAGATTCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGCCAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACACAAGCTATCCCATTTCCGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAGGTTAAGAAAGTCTGTCGGACAGCTTTAATAAACCCTGCACTTAT                           >  1:161338/1‑251                                                                                                                                                                                                                 TCAGGGGGCCAGTCTAGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAGGTTAAGAAAGTCTGTCGGACAGCTTTAATAAACCCTGCACTTATCTGTTTAGAGC                <  2:75647/250‑1                                                                                                                                                                                                                                AGGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATAGTACCAGGTTAAGAAAGTCTGTCGGACAGCTTTAATAAACCCTGCACTTATCTGTTTAGAGCAATTCGGTGTTAGT  <  2:28650/249‑1                                                                                                                                                                                                                                                                                                                                                                                                                                                                                          GGCTGGCTGCTACACCATGTTGCCGGGCAACGAGGGAGACCGTCATCCCCGGTTCAAAGCTCTGCTGAACAATTGCGATCTTTTCCTGTGTGGTACGCCGTCTGCGTTTCTCCGGCCCTAAGACATCAATCATCTGTTCTCCAATGACTAGTCTAAAAACTAGTATTAAGACTATCACTTATTTAAGTGATATTGGTTGTCTGGAGATTCAGGGGGCCAGTCTA‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑  >  NC_000913/1469017‑1469240 ‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑‑GGGAATGAGTCCACTCCGGTATCAGAAATGGCTACGTCTCAATGAAGTCAGGCGACAGATGCTGAATGAACATTACGATGTCACCACAGCAGCCTATGCTGTCGGTTACGAAAGCTATCCCATTTCAGTCGGGAATATTCGCGGATGTTTGGAGAGTCACCCAAGAGAGATATTACCAGGTTAAGAAAGTCTGTCGGACAGCTTTAATAAACCCTGCACTTATCTGTTTAGAGCAATTCGGTGTTAGT  <  NC_000913/1590540‑1590293

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.