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FSPLICE Program DescriptionProgram provides the possibility to search for both donor and acceptor sites, and to define thresholds for them independently. Program allows to search minor variants of splicing donor site (GC-site) as well. Output exampleFSplice 1.0. Prediction of potential splice sites in Homo_sapiens genomic DNA Seq name: NM_000449 chr 1 - 148089557 148094091 4535 Length of sequence: 4535 Direct chain. Acceptor(AG) sites. Treshold 4.175 (90%). 1 P: 187 W: 7.47 Seq: attctAGccctc 2 P: 296 W: 6.42 Seq: tcttcAGaggct 3 P: 495 W: 7.30 Seq: tccctAGcagtc 4 P: 498 W: 5.72 Seq: ctagcAGtcaga 5 P: 559 W: 14.18 Seq: cccacAGcaagg 6 P: 847 W: 6.42 Seq: atggtAGcctat 7 P: 1332 W: 9.70 Seq: acctcAGcaaga 8 P: 1383 W: 9.25 Seq: ccttcAGctccc 9 P: 1393 W: 5.38 Seq: ccctcAGgaccc 10 P: 1673 W: 9.95 Seq: tctgtAGctcag 11 P: 1721 W: 4.72 Seq: cctatAGgtgga 12 P: 1916 W: 6.72 Seq: tccctAGggact 13 P: 1984 W: 9.70 Seq: cactcAGgaagt 14 P: 2366 W: 12.18 Seq: ctcccAGgtaaa 15 P: 2467 W: 7.12 Seq: cctgtAGctgag 16 P: 2638 W: 7.42 Seq: acttcAGccaga 17 P: 2779 W: 6.42 Seq: gctacAGcagca 18 P: 2867 W: 6.42 Seq: gtctcAGcaacc 19 P: 2995 W: 5.03 Seq: ctaccAGtcagt 20 P: 3033 W: 5.85 Seq: tcctcAGtttcc 21 P: 3078 W: 9.68 Seq: tctgcAGaagag 22 P: 3342 W: 9.88 Seq: tttttAGcctcc 23 P: 3545 W: 8.12 Seq: cccccAGgcttt 24 P: 4435 W: 6.70 Seq: tcctaAGgaagt 25 P: 4458 W: 6.65 Seq: tgtacAGacagc 26 P: 4513 W: 5.65 Seq: ttttcAGcttga 27 P: 4533 W: 4.58 Seq: gctttAGtg--- Donor(GT) sites. Treshold 6.099 (90%). 1 P: 40 W: 8.20 Seq: aagtgGTgagaa 2 P: 150 W: 7.50 Seq: ccagtGTgagtt 3 P: 307 W: 7.64 Seq: ccgagGTaccat 4 P: 317 W: 9.32 Seq: atttcGTaagta 5 P: 594 W: 15.48 Seq: tcctgGTaagtg 6 P: 691 W: 9.60 Seq: gagagGTagggt 7 P: 1416 W: 13.38 Seq: aaaagGTaggtt 8 P: 1794 W: 7.36 Seq: tatcgGTgggtg 9 P: 2325 W: 10.44 Seq: agagtGTaagta 10 P: 2367 W: 13.10 Seq: cccagGTaaaag 11 P: 2438 W: 8.06 Seq: tctagGTatgat 12 P: 2841 W: 7.36 Seq: cgctgGTgtgtt 13 P: 3180 W: 14.08 Seq: cccagGTaagga 14 P: 3733 W: 10.16 Seq: gagagGTaggca 15 P: 3796 W: 8.62 Seq: tacctGTgagtg 16 P: 4177 W: 11.56 Seq: caaaaGTgagtg 17 P: 4237 W: 6.38 Seq: gagagGTagaca 18 P: 4341 W: 8.06 Seq: tacagGTctgtg Reverse chain. Acceptor(AG) sites. Treshold 4.175 (90%). 1 P: 193 W: 6.42 Seq: cccacAGacctg 2 P: 292 W: 5.40 Seq: ggtgcAGtgtct 3 P: 316 W: 4.58 Seq: gccaaAGgaaaa 4 P: 481 W: 8.07 Seq: ttttcAGcctct 5 P: 517 W: 10.38 Seq: cctccAGctgag 6 P: 646 W: 4.17 Seq: tttcgAGggcgc 7 P: 709 W: 7.05 Seq: gctttAGctggt 8 P: 742 W: 6.70 Seq: ctcacAGgtact 9 P: 1424 W: 5.67 Seq: ggtttAGatgac 10 P: 1463 W: 6.97 Seq: tctgcAGaggta 11 P: 1964 W: 7.45 Seq: ttgtcAGagatc 12 P: 2035 W: 6.78 Seq: attgcAGaagcc 13 P: 2068 W: 7.25 Seq: gcctcAGctaca 14 P: 2287 W: 4.72 Seq: actgtAGcaata 15 P: 2397 W: 9.20 Seq: ctcccAGgtcct 16 P: 2421 W: 4.40 Seq: tctctAGtcaag 17 P: 2748 W: 5.08 Seq: ccgatAGgcatc 18 P: 2798 W: 5.47 Seq: cttccAGgtggt 19 P: 3064 W: 6.58 Seq: ttcccAGtgaac 20 P: 3133 W: 10.05 Seq: tctccAGtggtg 21 P: 3901 W: 9.50 Seq: ccctcAGcattt 22 P: 3945 W: 6.03 Seq: ttaccAGgatcc 23 P: 4298 W: 4.72 Seq: cccccAGtcttg 24 P: 4406 W: 11.57 Seq: tccccAGaaggc 25 P: 4440 W: 9.12 Seq: tacccAGaaagg Donor(GT) sites. Treshold 6.099 (90%). 1 P: 31 W: 8.48 Seq: aaaagGTcagag 2 P: 49 W: 10.02 Seq: accagGTactaa 3 P: 400 W: 7.08 Seq: ctttgGTatgct 4 P: 743 W: 10.02 Seq: cacagGTacttc 5 P: 832 W: 6.80 Seq: gctgaGTgagtc 6 P: 896 W: 12.40 Seq: agttgGTaagat 7 P: 1218 W: 7.64 Seq: acacaGTaaggt 8 P: 1223 W: 8.90 Seq: gtaagGTgtgaa 9 P: 1466 W: 7.64 Seq: cagagGTaccaa 10 P: 1477 W: 12.26 Seq: aaaagGTaatag 11 P: 1491 W: 11.84 Seq: tgaagGTgagga 12 P: 1830 W: 7.64 Seq: cacagGTcaggg 13 P: 2196 W: 6.94 Seq: ggaagGTgattt 14 P: 2686 W: 6.80 Seq: catggGTgaggg 15 P: 2982 W: 7.22 Seq: ccctgGTaaacc 16 P: 3159 W: 9.32 Seq: tgaagGTagaga 17 P: 3209 W: 10.16 Seq: ctgagGTaggag 18 P: 3773 W: 6.80 Seq: atcaaGTgagag 19 P: 4253 W: 8.34 Seq: gggtgGTaggtt Where:Acceptor(AG) sites. - the type of splicing sites. For the current case "Acceptor(AG)" means the U2-type acceptor site. Possible variants: Donor(GT) sites. means U2-type donor GT-site (Major variant). Donor(GC) sites. means U2-type donor GC- site (Minor variant). Treshold 4.175 (90%) - means that for the current threshold value (4.175) 90% of true splicing sites are being classified as true. P: 187 - position of splicing site W: - weight of site. |
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