Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	1,590,834	IS2 (–) +5 bp	intergenic (‑833/+16)	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	1467910 =	NA (NA)	33 (0.810)	32/496	0.3	97.0%	noncoding (1331/1331 nt)	IS2	repeat region
	?	NC_000913	= 1590838	1 (0.030)					intergenic (‑837/+16)	ydeT/hipA	fimbrial usher domain‑containing protein YdeT/serine/threonine‑protein kinase toxin HipA
*	?	NC_000913	= 1469240	NA (NA)	30 (0.740)	27/494	0.4	96.7%	noncoding (1/1331 nt)	IS2	repeat region
	?	NC_000913	1590834 =	1 (0.030)					intergenic (‑833/+20)	ydeT/hipA	fimbrial usher domain‑containing protein YdeT/serine/threonine‑protein kinase toxin HipA

CTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGTTACTCTCCGG  >  NC_000913/1467698‑1468148                                                                                                                                                                                                                     |                                                                                                                                                                                                                                               cTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACtt                                                                                                                                                                                                          >  1:208353/1‑251 (MQ=255)          aGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCAtt                                                                                                                                                                                                  >  1:414738/1‑250 (MQ=255)                                                 gtcgtcGGTATCTATGAATGGAGATACGACAATCAGCGAAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCAAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATa                                                                                                                                                           >  2:406070/1‑250 (MQ=255)                                                       ggTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCGCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTTGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgc                                                                                                                                                    <  2:47992/251‑1 (MQ=255)                                                        gTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcg                                                                                                                                                   >  1:86996/1‑251 (MQ=255)                                                                      agaTACGACAATCAGCGGAGAATTCCTGCTGGGGTTTGCCGGGGTTATTCGGGCACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGAGATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCGGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGAGATTCCCGTGGCGAGCGATAACCCTgcgccagatgcgtatgc                                                                                                                                     <  2:133150/251‑14 (MQ=37)                                                                             aCAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGt                                                                                                                              >  1:282654/1‑251 (MQ=255)                                                                                      ggAGAATTCCATCAAGGGTTTGCAGGGGTTATTCGGGTACAGGCTAAAGCCTTACTGGAAAATGGCCGTGGCGCTACGCAAACAATGCAGGATATTGAAAGATTTGAACATCAGGGGACCAGAACCCTGGATTTGCCACTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTAGCGAGCGATAACCCAGCGCACTCTGCGGCTGACATTCGTTATAGTGCt                                                                                                                     >  2:412555/1‑251 (MQ=18)                                                                                               ccTCTGGGGTTTGCTGGGGGTAGTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCGACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATTGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTGATCACTTAACCCATTACAAGCCCGCTGCCGCTGATATTCCCGTTGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGATCGCct                                                                                                            <  2:454645/251‑1 (MQ=21)                                                                                                            ccGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAgcgc                                                                                                                                                  >  1:305211/1‑200 (MQ=255)                                                                                                            ccGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGAGATTCCCGTGGCGAGCGATAACCCAgcgc                                                                                                                                                  <  2:305211/200‑1 (MQ=255)                                                                                                                           tACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAAccc                                                                                >  1:355279/1‑251 (MQ=255)                                                                                                                                        tttGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTAGGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGGTTGGGc                                                                   >  2:241689/1‑251 (MQ=255)                                                                                                                                          tGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCAt                                                                 >  1:143921/1‑251 (MQ=255)                                                                                                                                           gCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATg                                                                <  2:99250/251‑1 (MQ=255)                                                                                                                                              ggAAATTGGCAGTGGCGCTAAGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGAt                                                              >  2:139885/1‑250 (MQ=255)                                                                                                                                              ggAAAATGGCAGTGGCGAAACGCTAACAATGCAGTATATTGACAGTTTTGAACATCATGGGAAAAGCACACTGGATTTGCCCATATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGATGCCGCAGATATTCCCGTGGCGAGCGCTAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCCCGAACGCCCCTGCAAGGTTCTTTGCCGCCGTTAACCCGTCTGGATTGGGAATggt                                                              >  2:69548/1‑248 (MQ=17)                                                                                                                                                        aGTGGCGATACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCCTGATACAGATGTAGt                                                   >  1:127233/1‑251 (MQ=255)                                                                                                                                                             cgctacgctaACAACGCACGATATTGACAGTTTTGAACATCATGGCACAAGAACCCCGGATTTGCCCCAATATTTCCCGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCACGTGGCGAGCGCTAACCCAGCGCTCTATGCGGATGACATCCGTTATAATGCTCGAACGCCCCTGCAAGGTTCTTTGCCGCCGTTAACCCGTCTTGTTTGGGCATGATACTACTGTAGTCACGc                                              >  2:305242/1‑251 (MQ=17)                                                                                                                                                                                gATATTGGCAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGCTATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACTAAGc                           >  2:137483/1‑251 (MQ=255)                                                                                                                                                                                         aGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGAt                                                                                                                                       >  2:440187/1‑134 (MQ=255)                                                                                                                                                                                         aGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGAt                                                                                                                                       <  1:440187/134‑1 (MQ=255)                                                                                                                                                                                            tttGAACATCATGGGACAAGAACCCTGGATTTGCCCCTAGATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTAtt                <  2:121243/250‑1 (MQ=255)                                                                                                                                                                                               gAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGCTACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGt            >  2:304544/1‑251 (MQ=39)                                                                                                                                                                                                   atgcattcctcaacaaccTGGCTTTGCACCTATATTTCCAGCCATCTGTTATAACTTAACCAATTCCAACCCCGCTGCCGAAGCTATTCCCGTAGAGAGAGATACCCCAGCGCCCTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGCTATTTGCTGCCGTTAACCCGACTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGACGCTCTCTGCTATTCCTTTAct        >  2:448148/17‑251 (MQ=11)                                                                                                                                                                                                   atcatGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGTTAct        >  1:209524/1‑251 (MQ=37)                                                                                                                                                                                                     catGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATATGTTATCACTTAACCCATTACAAGCACGCTGCCGCAGATACTCCCGTGGAGAGCGATAACCCAGCGCACTATGCGGATGACATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGTTActct      >  1:456953/1‑251 (MQ=255)                                                                                                                                                                                                          gACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGTTACTCTCCgg  >  2:117371/1‑250 (MQ=34)                                                                                                                                                                                                                     |                                                                                                                                                                                                                                               CTTGCGCACAGGATATAGTTATACCAGCGTTATTGTCGTTAGTGGTGAGTCGTCGGTATATCTGAATGGAGATACGACAATCAGCGGAGAATTCCCTCTGGGGTTTGCCGGGGTTATTCGGGTACAGGATAAAGCTTTGCTGGAAATTGGCAGTGGCGCTACGCTAACAATGCAGGATATTGACAGTTTTGAACATCATGGGACAAGAACCCTGGATTTGCCCCTATATTTCCAGACATCTGTTATCACTTAACCCATTACAAGCCCGCTGCCGCAGATATTCCCGTGGCGAGCGATAACCCAGCGCACTATGCGGATGCCATTCGTTATAATGCTCGAACGCCTCTGCAAGGTTCTTTGCTGCCGTTAACCCGTCTGGTTTGGGCATGATACTGATGTAGTCACGCTTTATCGTTTTCACGAAGCTCTCTGCTATTCCGTTACTCTCCGG  >  NC_000913/1467698‑1468148

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ 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.