miRNA display CGI


Results 1 - 20 of 32 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
3133 3' -56.7 NC_001493.1 + 3216 0.73 0.531479
Target:  5'- -aGAGGCGGACGAg--GACCcGGACgAg -3'
miRNA:   3'- ggCUCCGCCUGCUagaCUGG-UCUGgU- -5'
3133 3' -56.7 NC_001493.1 + 3787 0.68 0.769926
Target:  5'- gCGAGGCGcGGCGGUUucgaggugaUGugCGGGuCCAu -3'
miRNA:   3'- gGCUCCGC-CUGCUAG---------ACugGUCU-GGU- -5'
3133 3' -56.7 NC_001493.1 + 9270 0.71 0.631698
Target:  5'- -gGAGGCGGGCGugg-GGCUGGACUAc -3'
miRNA:   3'- ggCUCCGCCUGCuagaCUGGUCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 11063 0.66 0.870687
Target:  5'- cCCGuGGGaCGGACGcUCacacCCAGACCGa -3'
miRNA:   3'- -GGC-UCC-GCCUGCuAGacu-GGUCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 11164 1.1 0.002193
Target:  5'- cCCGAGGCGGACGAUCUGACCAGACCAc -3'
miRNA:   3'- -GGCUCCGCCUGCUAGACUGGUCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 19536 0.72 0.551189
Target:  5'- gCGGGGCGGcguCGAUCUua-CAGGCCAu -3'
miRNA:   3'- gGCUCCGCCu--GCUAGAcugGUCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 21390 0.66 0.877874
Target:  5'- aCCaGGGGCGG-CGGcCUGAaggUCGGGCCu -3'
miRNA:   3'- -GG-CUCCGCCuGCUaGACU---GGUCUGGu -5'
3133 3' -56.7 NC_001493.1 + 23691 0.68 0.797304
Target:  5'- cCCG-GGCGG--GAUCaUGACC-GACCAg -3'
miRNA:   3'- -GGCuCCGCCugCUAG-ACUGGuCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 28036 0.7 0.651973
Target:  5'- cUCGGuGGUugcgGGugGAUC-GACCGGACCGg -3'
miRNA:   3'- -GGCU-CCG----CCugCUAGaCUGGUCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 28310 0.69 0.722004
Target:  5'- aCCGAGGCGG-CGAaCacgUGugCGGACaCGa -3'
miRNA:   3'- -GGCUCCGCCuGCUaG---ACugGUCUG-GU- -5'
3133 3' -56.7 NC_001493.1 + 31199 0.66 0.877874
Target:  5'- aCCGccGCGGccGCGGUCUGugaCGGACUg -3'
miRNA:   3'- -GGCucCGCC--UGCUAGACug-GUCUGGu -5'
3133 3' -56.7 NC_001493.1 + 38576 0.69 0.722004
Target:  5'- gCCGAGGCcauggagucGAUGGUCgcGACCAGACa- -3'
miRNA:   3'- -GGCUCCGc--------CUGCUAGa-CUGGUCUGgu -5'
3133 3' -56.7 NC_001493.1 + 44555 0.74 0.464798
Target:  5'- gCGcGGGCGGACGAggcgugugaccUCgUGACCAGAgCCAc -3'
miRNA:   3'- gGC-UCCGCCUGCU-----------AG-ACUGGUCU-GGU- -5'
3133 3' -56.7 NC_001493.1 + 45895 0.69 0.712156
Target:  5'- gCGAGGCGGccagaaaaAUGAcCUGACUgacgGGGCCAu -3'
miRNA:   3'- gGCUCCGCC--------UGCUaGACUGG----UCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 53025 0.68 0.769926
Target:  5'- aCGcGGCGGACGAcccuuucCUGGCCgAGuCCAu -3'
miRNA:   3'- gGCuCCGCCUGCUa------GACUGG-UCuGGU- -5'
3133 3' -56.7 NC_001493.1 + 54978 0.68 0.80527
Target:  5'- aCGAGGCGcccguugcGACGGUCUcaucaccGACCucacccAGACCGa -3'
miRNA:   3'- gGCUCCGC--------CUGCUAGA-------CUGG------UCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 59747 0.67 0.823364
Target:  5'- cCCGugaaGGGCgGGACGGacugggaaccgUcCUGAUCAGGCCGg -3'
miRNA:   3'- -GGC----UCCG-CCUGCU-----------A-GACUGGUCUGGU- -5'
3133 3' -56.7 NC_001493.1 + 72414 0.67 0.84789
Target:  5'- cCCGAGGUGGAagcagacgcgGAUCaUGcucgugaauuacACCAGACCc -3'
miRNA:   3'- -GGCUCCGCCUg---------CUAG-AC------------UGGUCUGGu -5'
3133 3' -56.7 NC_001493.1 + 74008 0.67 0.855689
Target:  5'- gCGAGGauG-CGAUCaUGAuCCAGGCCc -3'
miRNA:   3'- gGCUCCgcCuGCUAG-ACU-GGUCUGGu -5'
3133 3' -56.7 NC_001493.1 + 75137 0.7 0.662091
Target:  5'- cUCGAGGgaauCGGGuCGGUgCUGGcCCAGGCCAa -3'
miRNA:   3'- -GGCUCC----GCCU-GCUA-GACU-GGUCUGGU- -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.