miRNA display CGI


Results 1 - 20 of 25 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
17178 3' -54.9 NC_004333.2 + 18300 0.66 0.761775
Target:  5'- uGCCG--UCG-GcGUCGUAGAuUUCCGGc -3'
miRNA:   3'- -CGGCcuAGCgC-CAGCGUCUuAAGGCC- -5'
17178 3' -54.9 NC_004333.2 + 40755 0.66 0.761775
Target:  5'- gGuuGGuguucuUUGCGGUCGC-GAGUgcgCCGa -3'
miRNA:   3'- -CggCCu-----AGCGCCAGCGuCUUAa--GGCc -5'
17178 3' -54.9 NC_004333.2 + 26054 0.66 0.751546
Target:  5'- cGCCGGAUUugccaGUGGcgcCGCAGcggcggcgcUUCCGGa -3'
miRNA:   3'- -CGGCCUAG-----CGCCa--GCGUCuu-------AAGGCC- -5'
17178 3' -54.9 NC_004333.2 + 22972 0.66 0.734935
Target:  5'- cGCCGGcagcGUCGCGGUaccggucgccgagaGCAGGAag-CGGa -3'
miRNA:   3'- -CGGCC----UAGCGCCAg-------------CGUCUUaagGCC- -5'
17178 3' -54.9 NC_004333.2 + 30464 0.66 0.720185
Target:  5'- uCCGGcgC-CGGUCGCuucGAcgUUCGGc -3'
miRNA:   3'- cGGCCuaGcGCCAGCGu--CUuaAGGCC- -5'
17178 3' -54.9 NC_004333.2 + 20310 0.67 0.709543
Target:  5'- cGCCGcGA-CGUGGUUGCcAGGcuugCCGGc -3'
miRNA:   3'- -CGGC-CUaGCGCCAGCG-UCUuaa-GGCC- -5'
17178 3' -54.9 NC_004333.2 + 24377 0.67 0.705265
Target:  5'- gGUCGG-UCGCGGcuguuccaggucgCGCAGucg-CCGGg -3'
miRNA:   3'- -CGGCCuAGCGCCa------------GCGUCuuaaGGCC- -5'
17178 3' -54.9 NC_004333.2 + 14180 0.67 0.688046
Target:  5'- uGCCGGGUCGC--UCGuCGGGAUg-CGGc -3'
miRNA:   3'- -CGGCCUAGCGccAGC-GUCUUAagGCC- -5'
17178 3' -54.9 NC_004333.2 + 28695 0.67 0.688046
Target:  5'- uGCCaGAUCGCGagcaGCAcGAcUUCCGGc -3'
miRNA:   3'- -CGGcCUAGCGCcag-CGU-CUuAAGGCC- -5'
17178 3' -54.9 NC_004333.2 + 11052 0.67 0.676127
Target:  5'- cCCGGGUCGaauucucgaccgcCGGgcgUGCGGcccAUUCCGGg -3'
miRNA:   3'- cGGCCUAGC-------------GCCa--GCGUCu--UAAGGCC- -5'
17178 3' -54.9 NC_004333.2 + 20412 0.67 0.666337
Target:  5'- aGCCGG-UCGCGGUaccCGuCGGcacggCCGGc -3'
miRNA:   3'- -CGGCCuAGCGCCA---GC-GUCuuaa-GGCC- -5'
17178 3' -54.9 NC_004333.2 + 3388 0.67 0.666337
Target:  5'- aCCGGcGUCGCcgucGUCGCGGGAgcUUCGGu -3'
miRNA:   3'- cGGCC-UAGCGc---CAGCGUCUUa-AGGCC- -5'
17178 3' -54.9 NC_004333.2 + 28775 0.67 0.655429
Target:  5'- cGCgCGGGUCGCGGcggCGC-GAcUUCCc- -3'
miRNA:   3'- -CG-GCCUAGCGCCa--GCGuCUuAAGGcc -5'
17178 3' -54.9 NC_004333.2 + 25489 0.68 0.644501
Target:  5'- aGCCGGGUUGCGuGUCaugaaGUAGAugcggCCGa -3'
miRNA:   3'- -CGGCCUAGCGC-CAG-----CGUCUuaa--GGCc -5'
17178 3' -54.9 NC_004333.2 + 20567 0.68 0.633561
Target:  5'- gGCCGGca-GCGGUugCGCGGcagccgCCGGg -3'
miRNA:   3'- -CGGCCuagCGCCA--GCGUCuuaa--GGCC- -5'
17178 3' -54.9 NC_004333.2 + 8971 0.68 0.633561
Target:  5'- gGCUGGAUCGUGGgccgugCGCGGcggcgaCCGa -3'
miRNA:   3'- -CGGCCUAGCGCCa-----GCGUCuuaa--GGCc -5'
17178 3' -54.9 NC_004333.2 + 803 0.68 0.62262
Target:  5'- uGCCGG-UCGcCGG-CGCAGGA--CCGa -3'
miRNA:   3'- -CGGCCuAGC-GCCaGCGUCUUaaGGCc -5'
17178 3' -54.9 NC_004333.2 + 11991 0.68 0.62262
Target:  5'- gGCCGuAUCGCGGU-GCAacGGAUgcggcagcucaUCCGGa -3'
miRNA:   3'- -CGGCcUAGCGCCAgCGU--CUUA-----------AGGCC- -5'
17178 3' -54.9 NC_004333.2 + 8098 0.69 0.589882
Target:  5'- -aCGGGUCGacguaGGUCGuCAGGuagUUCGGg -3'
miRNA:   3'- cgGCCUAGCg----CCAGC-GUCUua-AGGCC- -5'
17178 3' -54.9 NC_004333.2 + 45273 0.69 0.589882
Target:  5'- gGCCGGGcuUCGUGG-CGCGGAcagcugCCGc -3'
miRNA:   3'- -CGGCCU--AGCGCCaGCGUCUuaa---GGCc -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.