miRNA display CGI


Results 1 - 20 of 97 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
24380 3' -61 NC_005264.1 + 117045 0.68 0.56505
Target:  5'- aGCGCGGC-GGCccagaccgcaaUAGCCGCUCCggcgCCCAu -3'
miRNA:   3'- gCGCGUUGaCCG-----------AUUGGCGGGG----GGGU- -5'
24380 3' -61 NC_005264.1 + 137447 0.71 0.42562
Target:  5'- gGCGguGCUccugacggaaaccGuGCUAGCCGCCCUCCUc -3'
miRNA:   3'- gCGCguUGA-------------C-CGAUUGGCGGGGGGGu -5'
24380 3' -61 NC_005264.1 + 160010 0.7 0.47973
Target:  5'- aGCGCGACcGGCccuCCGCCaaCCCGu -3'
miRNA:   3'- gCGCGUUGaCCGauuGGCGGggGGGU- -5'
24380 3' -61 NC_005264.1 + 117436 0.7 0.488923
Target:  5'- gCGCGCAg--GGC--GCCGCCCUCCa- -3'
miRNA:   3'- -GCGCGUugaCCGauUGGCGGGGGGgu -5'
24380 3' -61 NC_005264.1 + 67460 0.69 0.526471
Target:  5'- aGCGCGgccaGCUcgugaaacccgaGGCcgGGCCGCCgCCCCGc -3'
miRNA:   3'- gCGCGU----UGA------------CCGa-UUGGCGGgGGGGU- -5'
24380 3' -61 NC_005264.1 + 161681 0.69 0.526471
Target:  5'- gCGCGCcggcaGACUGGCggccgGAUCGUCCCgugcgCCCGu -3'
miRNA:   3'- -GCGCG-----UUGACCGa----UUGGCGGGG-----GGGU- -5'
24380 3' -61 NC_005264.1 + 116571 0.69 0.545651
Target:  5'- uGCGCAGCUcGGC-GACC-CCuaaacgCCCCCAg -3'
miRNA:   3'- gCGCGUUGA-CCGaUUGGcGG------GGGGGU- -5'
24380 3' -61 NC_005264.1 + 114361 0.69 0.545651
Target:  5'- cCGCGCAACgcgcggGGCUAcugauguCCGCUUCgCCAc -3'
miRNA:   3'- -GCGCGUUGa-----CCGAUu------GGCGGGGgGGU- -5'
24380 3' -61 NC_005264.1 + 28362 0.68 0.554356
Target:  5'- aCGCGCAAUUGGaguGCgGCagaauugUCCCCCAu -3'
miRNA:   3'- -GCGCGUUGACCgauUGgCG-------GGGGGGU- -5'
24380 3' -61 NC_005264.1 + 48153 0.71 0.417947
Target:  5'- cCGCGCAauccuGCUcGGCgUGGCUGCaCCCCCGc -3'
miRNA:   3'- -GCGCGU-----UGA-CCG-AUUGGCGgGGGGGU- -5'
24380 3' -61 NC_005264.1 + 142028 0.71 0.404515
Target:  5'- cCGCGCGAUUGGCgugcauggcgugcACgGUUCCCCCGg -3'
miRNA:   3'- -GCGCGUUGACCGau-----------UGgCGGGGGGGU- -5'
24380 3' -61 NC_005264.1 + 9470 0.71 0.4012
Target:  5'- uCGCGCAACgcuucGcGCgucuugucuGCCGCCuCCCCCGu -3'
miRNA:   3'- -GCGCGUUGa----C-CGau-------UGGCGG-GGGGGU- -5'
24380 3' -61 NC_005264.1 + 156698 0.74 0.270866
Target:  5'- uGCGCGACgGGCgcgcGGCCcucGCCCUCCCGc -3'
miRNA:   3'- gCGCGUUGaCCGa---UUGG---CGGGGGGGU- -5'
24380 3' -61 NC_005264.1 + 156003 0.72 0.346071
Target:  5'- uGCGC-GCUGGCgccauagucGCCGCCgCCUCCGg -3'
miRNA:   3'- gCGCGuUGACCGau-------UGGCGG-GGGGGU- -5'
24380 3' -61 NC_005264.1 + 118690 0.72 0.346071
Target:  5'- aCGCGCucGCgcGGCUuACCuGCCCUCCCGc -3'
miRNA:   3'- -GCGCGu-UGa-CCGAuUGG-CGGGGGGGU- -5'
24380 3' -61 NC_005264.1 + 131145 0.72 0.376897
Target:  5'- gCGCGCGACcuuUGGCgGGCaGCCCCgCCGa -3'
miRNA:   3'- -GCGCGUUG---ACCGaUUGgCGGGGgGGU- -5'
24380 3' -61 NC_005264.1 + 102526 0.71 0.384887
Target:  5'- gGCGCuaauuGACUGGCUcACCGCCUUCUUg -3'
miRNA:   3'- gCGCG-----UUGACCGAuUGGCGGGGGGGu -5'
24380 3' -61 NC_005264.1 + 52691 0.71 0.392989
Target:  5'- aGcCGCGGCgGGUUucGCCGCCCgCCCCc -3'
miRNA:   3'- gC-GCGUUGaCCGAu-UGGCGGG-GGGGu -5'
24380 3' -61 NC_005264.1 + 91209 0.71 0.392989
Target:  5'- uCGCGC-ACUGgGCUAucucuGCCGCCgCCUCGc -3'
miRNA:   3'- -GCGCGuUGAC-CGAU-----UGGCGGgGGGGU- -5'
24380 3' -61 NC_005264.1 + 130085 0.71 0.4012
Target:  5'- aGUGCGaaagugACguaGGCggguGCCGCCCCCUCAa -3'
miRNA:   3'- gCGCGU------UGa--CCGau--UGGCGGGGGGGU- -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.