miRNA display CGI


Results 1 - 20 of 210 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
13960 3' -60.9 NC_003521.1 + 74157 0.71 0.525044
Target:  5'- -aCGgggcCCAGGUGCCGCuGGCcgacuGCGCCGc -3'
miRNA:   3'- caGCa---GGUCCGCGGCGuCUG-----UGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 35801 0.72 0.46183
Target:  5'- aUCcaUCGGGCGUCGCGG-CACGCCGu -3'
miRNA:   3'- cAGcaGGUCCGCGGCGUCuGUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 34567 0.72 0.470624
Target:  5'- gGUCGgggugcaCCAGGCugacgccggGCUGCAGGCGCGCgCAg -3'
miRNA:   3'- -CAGCa------GGUCCG---------CGGCGUCUGUGCG-GU- -5'
13960 3' -60.9 NC_003521.1 + 117053 0.72 0.479503
Target:  5'- uUCGcCCgAGGCgGCCGCGGAgccggcgguCACGCCGu -3'
miRNA:   3'- cAGCaGG-UCCG-CGGCGUCU---------GUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 75992 0.71 0.497501
Target:  5'- cUCG-CCGGGCGCCGuCAG-CACGUa- -3'
miRNA:   3'- cAGCaGGUCCGCGGC-GUCuGUGCGgu -5'
13960 3' -60.9 NC_003521.1 + 48992 0.71 0.506612
Target:  5'- cUCGUCCaucucgcaGGGCGUCGUAGGgggcaguacaguCACGCCGu -3'
miRNA:   3'- cAGCAGG--------UCCGCGGCGUCU------------GUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 27561 0.71 0.515795
Target:  5'- cGUCGUCCGGGCG--GUcGACGCGUCGg -3'
miRNA:   3'- -CAGCAGGUCCGCggCGuCUGUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 103444 0.71 0.515795
Target:  5'- -cCG-CCAGGuCGCgGCGGuuGCGCGCCAc -3'
miRNA:   3'- caGCaGGUCC-GCGgCGUC--UGUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 104963 0.71 0.525044
Target:  5'- gGUCGUgCCgcggGGGCGCCGC-GAgACGUCGg -3'
miRNA:   3'- -CAGCA-GG----UCCGCGGCGuCUgUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 225579 0.72 0.435982
Target:  5'- uGUCGUCCuGGCGCUcgGCGGccuCGCGCUc -3'
miRNA:   3'- -CAGCAGGuCCGCGG--CGUCu--GUGCGGu -5'
13960 3' -60.9 NC_003521.1 + 76174 0.72 0.435982
Target:  5'- gGUCGUCgCGGGC-CUGCGuGAgGCGCCAc -3'
miRNA:   3'- -CAGCAG-GUCCGcGGCGU-CUgUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 46078 0.73 0.427553
Target:  5'- gGUCGcgacgCCcGGCGUCGCAGACcuuguaGCGCCGc -3'
miRNA:   3'- -CAGCa----GGuCCGCGGCGUCUG------UGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 153888 0.76 0.287375
Target:  5'- cGUCGUCCAGcGCGCgGUAGGggaacaGCGCCGc -3'
miRNA:   3'- -CAGCAGGUC-CGCGgCGUCUg-----UGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 239345 0.76 0.293766
Target:  5'- aGUCGUCCGGGCGuCUGCAGcgGgAUGCCc -3'
miRNA:   3'- -CAGCAGGUCCGC-GGCGUC--UgUGCGGu -5'
13960 3' -60.9 NC_003521.1 + 103732 0.75 0.306881
Target:  5'- --gGUUCAGGUGCCGCAGcAC-CGCCGc -3'
miRNA:   3'- cagCAGGUCCGCGGCGUC-UGuGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 85474 0.75 0.313604
Target:  5'- gGUCGUCguGGUGCCGguGccCGCGCCc -3'
miRNA:   3'- -CAGCAGguCCGCGGCguCu-GUGCGGu -5'
13960 3' -60.9 NC_003521.1 + 172780 0.74 0.356271
Target:  5'- ----aCCggGGGCGCCGCGGAcCACGCCGc -3'
miRNA:   3'- cagcaGG--UCCGCGGCGUCU-GUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 223766 0.73 0.394828
Target:  5'- cGUCGUCCucgcugucGGCGCCGUuaccgccguGGGC-CGCCAg -3'
miRNA:   3'- -CAGCAGGu-------CCGCGGCG---------UCUGuGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 213471 0.73 0.419221
Target:  5'- -aCGUCaugacGGCGCCGguG-CACGCCAu -3'
miRNA:   3'- caGCAGgu---CCGCGGCguCuGUGCGGU- -5'
13960 3' -60.9 NC_003521.1 + 59560 0.73 0.422542
Target:  5'- -gCGUCC-GGCGCCGCGgGgguuucguccgagaaGCGCGCCAa -3'
miRNA:   3'- caGCAGGuCCGCGGCGU-C---------------UGUGCGGU- -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.