miRNA display CGI


Results 1 - 18 of 18 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
24642 3' -52.8 NC_005264.1 + 17855 0.66 0.984451
Target:  5'- gCGCGCUguucgaCCgCGUGAGcaaucggcgGGCUgaUCUACGg -3'
miRNA:   3'- -GCGCGA------GGgGCAUUUa--------CCGA--AGAUGC- -5'
24642 3' -52.8 NC_005264.1 + 149726 0.66 0.984451
Target:  5'- aGCGCUUgCUGU-AGUGGCgccgGCGg -3'
miRNA:   3'- gCGCGAGgGGCAuUUACCGaagaUGC- -5'
24642 3' -52.8 NC_005264.1 + 9608 0.66 0.980459
Target:  5'- uGCGCcgaaggCUCCGUAAcGUGGCUg-UACGc -3'
miRNA:   3'- gCGCGa-----GGGGCAUU-UACCGAagAUGC- -5'
24642 3' -52.8 NC_005264.1 + 93120 0.66 0.978198
Target:  5'- cCGCGCUCCCgCGguucacGAUGGCgcCaAUGa -3'
miRNA:   3'- -GCGCGAGGG-GCau----UUACCGaaGaUGC- -5'
24642 3' -52.8 NC_005264.1 + 190 0.66 0.978198
Target:  5'- uGCGuCUCCCUa-GAAUGGgauuaUUCUGCGg -3'
miRNA:   3'- gCGC-GAGGGGcaUUUACCg----AAGAUGC- -5'
24642 3' -52.8 NC_005264.1 + 42059 0.66 0.975749
Target:  5'- uCGCGUUgCCCGcGGcgcGUGGCgucagCUGCGc -3'
miRNA:   3'- -GCGCGAgGGGCaUU---UACCGaa---GAUGC- -5'
24642 3' -52.8 NC_005264.1 + 129112 0.67 0.963929
Target:  5'- aGCaGCUCCuCCcUGAucagGGUUUCUACGc -3'
miRNA:   3'- gCG-CGAGG-GGcAUUua--CCGAAGAUGC- -5'
24642 3' -52.8 NC_005264.1 + 29849 0.67 0.960436
Target:  5'- gGCGCUCCCuCGUAucagcuuAUGGUag-UACGa -3'
miRNA:   3'- gCGCGAGGG-GCAUu------UACCGaagAUGC- -5'
24642 3' -52.8 NC_005264.1 + 133399 0.67 0.956715
Target:  5'- gGCGCagCCCGUuGGUGGCcccaaagcCUACGc -3'
miRNA:   3'- gCGCGagGGGCAuUUACCGaa------GAUGC- -5'
24642 3' -52.8 NC_005264.1 + 101753 0.68 0.948575
Target:  5'- gCGCGCUCCCCaaaggacguGGUGGCggccCUgaACGg -3'
miRNA:   3'- -GCGCGAGGGGcau------UUACCGaa--GA--UGC- -5'
24642 3' -52.8 NC_005264.1 + 20533 0.68 0.93948
Target:  5'- aCGCGUUgCgCCCGUugcAUGGCUUgUAUGu -3'
miRNA:   3'- -GCGCGA-G-GGGCAuu-UACCGAAgAUGC- -5'
24642 3' -52.8 NC_005264.1 + 100394 0.69 0.924005
Target:  5'- cCGCuGCUgcgCCCCGUAuuggucGUGGUUgugCUGCGa -3'
miRNA:   3'- -GCG-CGA---GGGGCAUu-----UACCGAa--GAUGC- -5'
24642 3' -52.8 NC_005264.1 + 79349 0.69 0.918355
Target:  5'- uGCGCUCuCCCGU-GAUGuGCgcCUugGu -3'
miRNA:   3'- gCGCGAG-GGGCAuUUAC-CGaaGAugC- -5'
24642 3' -52.8 NC_005264.1 + 157589 0.69 0.906321
Target:  5'- gGCGCuUCCCCGUAGcccagcagGGCgucCUGCu -3'
miRNA:   3'- gCGCG-AGGGGCAUUua------CCGaa-GAUGc -5'
24642 3' -52.8 NC_005264.1 + 162557 0.72 0.787892
Target:  5'- aGCGCUCUUCGccagaaugaucUAAGUgGGCUUCUGCc -3'
miRNA:   3'- gCGCGAGGGGC-----------AUUUA-CCGAAGAUGc -5'
24642 3' -52.8 NC_005264.1 + 18713 0.72 0.778539
Target:  5'- gGUGC-CCCCGUA--UGGgUUCUugGg -3'
miRNA:   3'- gCGCGaGGGGCAUuuACCgAAGAugC- -5'
24642 3' -52.8 NC_005264.1 + 103244 0.73 0.749709
Target:  5'- uCGCGUUCUCaCGUAuAGUGGCcuucUUCUGCGc -3'
miRNA:   3'- -GCGCGAGGG-GCAU-UUACCG----AAGAUGC- -5'
24642 3' -52.8 NC_005264.1 + 87923 1.09 0.006298
Target:  5'- aCGCGCUCCCCGUAAAUGGCUUCUACGc -3'
miRNA:   3'- -GCGCGAGGGGCAUUUACCGAAGAUGC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.