miRNA display CGI


Results 1 - 20 of 22 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
20783 3' -57.1 NC_004689.1 + 54552 0.66 0.693679
Target:  5'- uACUGGCCGGa--GUCCAccagauaaccgUUGCGGCa -3'
miRNA:   3'- -UGACUGGCCgguUAGGUa----------GACGCCGg -5'
20783 3' -57.1 NC_004689.1 + 33606 0.66 0.683092
Target:  5'- --cGcACCGGCCAcgCCGcCUGCuacuGCCu -3'
miRNA:   3'- ugaC-UGGCCGGUuaGGUaGACGc---CGG- -5'
20783 3' -57.1 NC_004689.1 + 33686 0.67 0.640386
Target:  5'- aGCUGAUCGGC---UCCggCaGCGGCa -3'
miRNA:   3'- -UGACUGGCCGguuAGGuaGaCGCCGg -5'
20783 3' -57.1 NC_004689.1 + 48985 0.67 0.640386
Target:  5'- gACUGAuCCGGCuCGAcggCC-UCggacugcGCGGCCu -3'
miRNA:   3'- -UGACU-GGCCG-GUUa--GGuAGa------CGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 67188 0.67 0.640386
Target:  5'- uCUGACCuGCCGuuAUCCcaAUCUGU-GCCg -3'
miRNA:   3'- uGACUGGcCGGU--UAGG--UAGACGcCGG- -5'
20783 3' -57.1 NC_004689.1 + 65627 0.67 0.607177
Target:  5'- gGCUGGCUGGUgAacacguaccggcuGUCCucgUUGCGGCa -3'
miRNA:   3'- -UGACUGGCCGgU-------------UAGGua-GACGCCGg -5'
20783 3' -57.1 NC_004689.1 + 65525 0.67 0.597561
Target:  5'- -gUGucuCCGGCCuccaCGUC-GCGGCCa -3'
miRNA:   3'- ugACu--GGCCGGuuagGUAGaCGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 6852 0.67 0.597561
Target:  5'- gUUGAgaaCGGCCaAGUCCAaa-GCGGCCu -3'
miRNA:   3'- uGACUg--GCCGG-UUAGGUagaCGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 22228 0.68 0.555176
Target:  5'- --cGACCGGCCAGcggacCCuucuUCgGCGGCg -3'
miRNA:   3'- ugaCUGGCCGGUUa----GGu---AGaCGCCGg -5'
20783 3' -57.1 NC_004689.1 + 13321 0.68 0.544707
Target:  5'- gGCUcACCGGCCuGUUCG--UGCGGCa -3'
miRNA:   3'- -UGAcUGGCCGGuUAGGUagACGCCGg -5'
20783 3' -57.1 NC_004689.1 + 30226 0.69 0.523969
Target:  5'- cCUGcACCGGCUgccGAUCCGUUcccaGUGGCUa -3'
miRNA:   3'- uGAC-UGGCCGG---UUAGGUAGa---CGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 1851 0.69 0.513713
Target:  5'- cUUGG-CGcGCUGAUCCGaugCUGCGGCCu -3'
miRNA:   3'- uGACUgGC-CGGUUAGGUa--GACGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 57039 0.69 0.501517
Target:  5'- uACUGGCCuccguaguacgGGCCGGgacggcucagcgCCGUgcaUGCGGCCa -3'
miRNA:   3'- -UGACUGG-----------CCGGUUa-----------GGUAg--ACGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 27175 0.7 0.46281
Target:  5'- uAUUGACCggcaccgugauucGGCCuuGUUCGUCUGCGaaGCCg -3'
miRNA:   3'- -UGACUGG-------------CCGGu-UAGGUAGACGC--CGG- -5'
20783 3' -57.1 NC_004689.1 + 48868 0.7 0.428519
Target:  5'- --cGugCGGCCAuccgcugagccugcUCCGcgcacgcUCUGCGGCCu -3'
miRNA:   3'- ugaCugGCCGGUu-------------AGGU-------AGACGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 31768 0.7 0.41651
Target:  5'- uAUUGaACCgcaGGCCAAUCCGcUCgaUGCGGUCg -3'
miRNA:   3'- -UGAC-UGG---CCGGUUAGGU-AG--ACGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 25453 0.71 0.398441
Target:  5'- cACUGGCCGGaUCGAUCU-UCgGCgGGCCu -3'
miRNA:   3'- -UGACUGGCC-GGUUAGGuAGaCG-CCGG- -5'
20783 3' -57.1 NC_004689.1 + 13938 0.71 0.398441
Target:  5'- -gUGACCGGCCcGUCguUCUGa-GCCu -3'
miRNA:   3'- ugACUGGCCGGuUAGguAGACgcCGG- -5'
20783 3' -57.1 NC_004689.1 + 38315 0.71 0.372299
Target:  5'- --cGACCGGCUug-CC-UUUGCGGCUg -3'
miRNA:   3'- ugaCUGGCCGGuuaGGuAGACGCCGG- -5'
20783 3' -57.1 NC_004689.1 + 11394 0.72 0.331392
Target:  5'- cCUGAgUGGCgaGAUUCAcggCUGCGGCCa -3'
miRNA:   3'- uGACUgGCCGg-UUAGGUa--GACGCCGG- -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.