miRNA display CGI


Results 1 - 20 of 99 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
9199 3' -55.1 NC_002512.2 + 191193 0.66 0.978683
Target:  5'- cGAcCGUCuccuCCGuCGGCUCggucuucccCGGGGGCg -3'
miRNA:   3'- aCUaGCAGu---GGC-GCUGAGa--------GCCUCUG- -5'
9199 3' -55.1 NC_002512.2 + 10485 0.66 0.978683
Target:  5'- gUGggCGUCGCgGCgGGC-CgaccagCGGAGGCa -3'
miRNA:   3'- -ACuaGCAGUGgCG-CUGaGa-----GCCUCUG- -5'
9199 3' -55.1 NC_002512.2 + 80663 0.66 0.978683
Target:  5'- gGGUcCGUCGgucCCGCGGCggCggcgaCGGGGGCg -3'
miRNA:   3'- aCUA-GCAGU---GGCGCUGa-Ga----GCCUCUG- -5'
9199 3' -55.1 NC_002512.2 + 35278 0.66 0.978683
Target:  5'- cGA-CG--GCCGCGGCgg-CGGAGGCg -3'
miRNA:   3'- aCUaGCagUGGCGCUGagaGCCUCUG- -5'
9199 3' -55.1 NC_002512.2 + 102409 0.66 0.978683
Target:  5'- cGA-CGUCGCCGCG--UC-CGGAcGGCa -3'
miRNA:   3'- aCUaGCAGUGGCGCugAGaGCCU-CUG- -5'
9199 3' -55.1 NC_002512.2 + 123651 0.66 0.978683
Target:  5'- gGGUauauaaCGCCGCGGCggccgggCUCGGGGAa -3'
miRNA:   3'- aCUAgca---GUGGCGCUGa------GAGCCUCUg -5'
9199 3' -55.1 NC_002512.2 + 2141 0.66 0.978683
Target:  5'- cGGUCGUCGCCucccccgucacgGCGG-UCgaggagUCGGGGACc -3'
miRNA:   3'- aCUAGCAGUGG------------CGCUgAG------AGCCUCUG- -5'
9199 3' -55.1 NC_002512.2 + 13653 0.66 0.976375
Target:  5'- cGAcCGUCucGCCGCGGCUCcagcuccCGGAcgaGGCg -3'
miRNA:   3'- aCUaGCAG--UGGCGCUGAGa------GCCU---CUG- -5'
9199 3' -55.1 NC_002512.2 + 139101 0.66 0.976375
Target:  5'- gGAUCGUCGcCCGCGucAC-CUCGuuGGCc -3'
miRNA:   3'- aCUAGCAGU-GGCGC--UGaGAGCcuCUG- -5'
9199 3' -55.1 NC_002512.2 + 65298 0.66 0.976375
Target:  5'- aGcAUCGcCGCCGCGucCUCccCGGAGuACg -3'
miRNA:   3'- aC-UAGCaGUGGCGCu-GAGa-GCCUC-UG- -5'
9199 3' -55.1 NC_002512.2 + 99123 0.66 0.976375
Target:  5'- gUGGUcCG-CGCCGCGGCgaUCUUuagcaaGGGGACu -3'
miRNA:   3'- -ACUA-GCaGUGGCGCUG--AGAG------CCUCUG- -5'
9199 3' -55.1 NC_002512.2 + 84338 0.66 0.97389
Target:  5'- ---gCGUCGCCGCGucCUCgagCGG-GAUg -3'
miRNA:   3'- acuaGCAGUGGCGCu-GAGa--GCCuCUG- -5'
9199 3' -55.1 NC_002512.2 + 116446 0.66 0.97389
Target:  5'- cUGAUCGcCACC-Cag--CUCGGGGACg -3'
miRNA:   3'- -ACUAGCaGUGGcGcugaGAGCCUCUG- -5'
9199 3' -55.1 NC_002512.2 + 128068 0.66 0.97389
Target:  5'- gGAUCGUCGCgGCGcccaggaaGCcucCUCGGAaGCg -3'
miRNA:   3'- aCUAGCAGUGgCGC--------UGa--GAGCCUcUG- -5'
9199 3' -55.1 NC_002512.2 + 150691 0.66 0.973631
Target:  5'- cGGUCGcCccgacggACCGuUGGCUCUCGGcGGCc -3'
miRNA:   3'- aCUAGCaG-------UGGC-GCUGAGAGCCuCUG- -5'
9199 3' -55.1 NC_002512.2 + 192562 0.66 0.97122
Target:  5'- aGcgCGUCcgugGCCGgGGC-CUCGGAG-Cg -3'
miRNA:   3'- aCuaGCAG----UGGCgCUGaGAGCCUCuG- -5'
9199 3' -55.1 NC_002512.2 + 109386 0.66 0.96836
Target:  5'- ---cCGUCACCGCGA---UCGGcGGCg -3'
miRNA:   3'- acuaGCAGUGGCGCUgagAGCCuCUG- -5'
9199 3' -55.1 NC_002512.2 + 155879 0.66 0.965303
Target:  5'- cUGuUCGUCcCCGaCGGCgggCgCGGGGACg -3'
miRNA:   3'- -ACuAGCAGuGGC-GCUGa--GaGCCUCUG- -5'
9199 3' -55.1 NC_002512.2 + 219306 0.66 0.965303
Target:  5'- --uUCGUCGuCCGCGGC-CaCGGGGAg -3'
miRNA:   3'- acuAGCAGU-GGCGCUGaGaGCCUCUg -5'
9199 3' -55.1 NC_002512.2 + 209104 0.66 0.965303
Target:  5'- gGGUCGUCACCcCGugUCcCGacguccGGGACu -3'
miRNA:   3'- aCUAGCAGUGGcGCugAGaGC------CUCUG- -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.