Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
JC JC	NC_000913	1,199,869	+GA :: IS3 (+) +4 bp	coding (935‑938/1128 nt)	intE ←	putative integrase

New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	315229 =	NA (NA)	25 (0.870) +TC	24/480	0.3	100%	noncoding (1/1255 nt)	IS3	repeat region
	?	NC_000913	= 1199872	0 (0.000)					coding (935/1128 nt)	intE	putative integrase
*	?	NC_000913	1094245 =	NA (NA)	18 (0.620)	17/484	0.6	100%	noncoding (1258/1258 nt)	IS3	repeat region
	?	NC_000913	1199869 =	0 (0.000)					coding (938/1128 nt)	intE	putative integrase

CGTGCGAAAGCTTTAGCGGAAAGGATTCGGGAAAATGTTGAGCGTTTAACTGGCGATAATCCTGAATACGCTATACCACAAAAAGTGACGATTAGTATTGGCGCTGTTGTGACTCAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCCGCATTATTTCCCGGCTGATAAAGTGTTCTCCATGGATACATTCCACTTTCAGCGAATGAAAGAAGCTTTCCACGCAGGCATTATCGTAGCAGCAACCTTTTGCGCTC  >  NC_000913/1093995‑1094488                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                     cGTGCGAAAGCTTTAGCGGAAAGGATTCGGGAAAATGTTGAGCGTTTAACTGGCGATAATCCTGAATACGCTATACCACAAAAAGTGACGATTAGTATTGGCGCTGTTGTGACTCAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCAtttt                                                                                                                                                                                                                                                      <  1:227278/251‑1 (MQ=255)              tAGCGGAAAGGATTCGGGAAAATGTTGAGCGTTTAACTGGCGATAATCCTGAATACGCTATACCACAAAAAGTGACGATTAGTATTGGCGCTGTTGTGACTCAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACg                                                                                                                                                                                                                                         >  1:202994/1‑251 (MQ=255)                            cGGGAAAATGTTGAGCGTTTAACTGGCGATAATCCTGAATACGCTATACCACAAAAAGTGACGATTAGTATTGGCGCTGTTGTGACTCAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAg                                                                                                                                                                                                                           <  2:202572/251‑1 (MQ=255)                                                                            ccACAAAAAGTGACGATTAGTATTGGCGCTGTTGTGACTCAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgcc                                                                                                                                                                           >  1:83110/1‑250 (MQ=255)                                                                                    aGTGACGATTAGTATTGGCGCTGTTGTGACTCAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACt                                                                                                                                                                  <  1:241318/251‑1 (MQ=255)                                                                                                                aCTCAGGAACATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACAt                                                                                                                                      >  2:132324/1‑251 (MQ=255)                                                                                                                   cAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTc                                                                                                                                    <  1:73217/250‑1 (MQ=255)                                                                                                                   cAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCg                                                                                                                                   >  2:9707/1‑251 (MQ=255)                                                                                                                                   aCCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCg                                                                                                                   >  1:147393/1‑251 (MQ=255)                                                                                                                                          agagaTCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGCACGCCACACCAACTGTGCCGCCGCCACCGACTGTAATCACATTCGATATAATTAAACACCGTTGCCCg                                                                                                            >  2:125994/2‑251 (MQ=255)                                                                                                                                                     gACTGGCTGATAACGCACTTAACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCCGCATTATTTccc                                                                                                 <  1:254304/251‑1 (MQ=255)                                                                                                                                                                             aGGCGCAAGAGACCGGGAGGAATCAGGTGGTTGTGAGGGCTGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCCGCATTATTTCCCGGCTGATAAAGTGTTCTCCATgg                                                                          >  2:25430/1‑250 (MQ=255)                                                                                                                                                                                                  ataaGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCCCGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTACACACCGTTGCCCGCATTATTTCCCGGCTGATAAAGTGTTCTCCATGGATACATTCCACTTTCAGCGact                                                    >  1:196360/1‑249 (MQ=255)                                                                                                                                                                                                                                    ggagtcccaaTAAAGCGGCATTTTGACCCTACCCACGTAATATGTAAACAGGCCTAA‑GCGATGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGAAATCACATTCGATATAATTAAACACCGTTGCCCGCATTATTTCCCGGCTGATAAAGTGTTCTCCATGGATACATTCCACTTTCAGCGAATGAAAGAAGCTTTCCACGCAGGCATTATCGTagca                  <  2:213970/242‑1 (MQ=11)                                                                                                                                                                                                                                            gtataaaaaccATTTGGATCCTACCCACGTAATA‑GGAAAAAAGCCAAAAGTGAGTTTCGGGTTTTCAAATTGTTTAGGAATGAGGCCGCAACACCAACTGTGCCGACGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCCGCATTAGTTCCCGGCTGATAAAGTGTTCTCCATGGATACATTCCACTTGCAGCGAATGAAAGAAGCTTTCCACGCAGGCATTATCGTAgcagcatcc            <  2:81847/239‑4 (MQ=11)                                                                                                                                                                                                                                                    ggCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑CCGAGGTTCTTGTTTTCAAATTGCTCCGGACTGCGGCCGCCACACCACCTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCCGCATTATTTCCCGGCTGATAAAGTGTTCTCCATGGATACATTCCACTTTCAGCGAATGAAAGAAGCTTTCCACGCAGGCATTATCGTAGCAGCAACCTTTTGCGCTc  >  1:287192/1‑251 (MQ=12)                                                                                                                                                                                                                                                           |                                                                                                                                                                                                                                                     CGTGCGAAAGCTTTAGCGGAAAGGATTCGGGAAAATGTTGAGCGTTTAACTGGCGATAATCCTGAATACGCTATACCACAAAAAGTGACGATTAGTATTGGCGCTGTTGTGACTCAGGAAAATGCGTTAAACCCAAATGAGATCTATCGACTGGCTGATAACGCACTTTACGAGGCGAAAGAGACCGGGCGTAATAAGGTGGTTGTGAGGGATGTGGTGAATTTTTGTGAGTCACCATAAAGCGGCATTTTGATCCTACCCACGTAATATGGACACAGGCCTAA‑GCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCCGCATTATTTCCCGGCTGATAAAGTGTTCTCCATGGATACATTCCACTTTCAGCGAATGAAAGAAGCTTTCCACGCAGGCATTATCGTAGCAGCAACCTTTTGCGCTC  >  NC_000913/1093995‑1094488

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