miRNA display CGI


Results 1 - 20 of 43 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
22233 5' -61.6 NC_005045.1 + 152 0.68 0.231242
Target:  5'- aGGGCAgggaagcccucGCCACCCGGCgaagccggaagcuccCAGGAggcuaggcaguggcCCACCAg -3'
miRNA:   3'- -CUCGU-----------CGGUGGGUCG---------------GUCCU--------------GGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 211 0.69 0.167643
Target:  5'- uGGGCAGCCACgCCAcCgCAGGGuugacacucCCGCCAg -3'
miRNA:   3'- -CUCGUCGGUG-GGUcG-GUCCU---------GGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 308 0.78 0.040624
Target:  5'- uGAGCAGCacaGCCCguacccagcAGCCAGGGCCagaGCCAg -3'
miRNA:   3'- -CUCGUCGg--UGGG---------UCGGUCCUGG---UGGU- -5'
22233 5' -61.6 NC_005045.1 + 552 0.77 0.041824
Target:  5'- gGAGUGGCCagGCaaAGCCAGGACCACCc -3'
miRNA:   3'- -CUCGUCGG--UGggUCGGUCCUGGUGGu -5'
22233 5' -61.6 NC_005045.1 + 827 1.07 0.00019
Target:  5'- gGAGCAGCCACCCAGCCAGGACCACCAc -3'
miRNA:   3'- -CUCGUCGGUGGGUCGGUCCUGGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 1176 0.69 0.191776
Target:  5'- ---uGGCCACUCAGCaaaAGGGCCuauGCCAg -3'
miRNA:   3'- cucgUCGGUGGGUCGg--UCCUGG---UGGU- -5'
22233 5' -61.6 NC_005045.1 + 6175 0.7 0.150334
Target:  5'- uGAGCcgacAGaCgGCCuCGGUCGGGGCCACCGu -3'
miRNA:   3'- -CUCG----UC-GgUGG-GUCGGUCCUGGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 7239 0.73 0.096268
Target:  5'- uGAGCAGCaCGCCC----AGGGCCACCAg -3'
miRNA:   3'- -CUCGUCG-GUGGGucggUCCUGGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 7502 0.66 0.312477
Target:  5'- uAGCAguauGCCACCCAGCgguCAGGAagguuCUugCAg -3'
miRNA:   3'- cUCGU----CGGUGGGUCG---GUCCU-----GGugGU- -5'
22233 5' -61.6 NC_005045.1 + 9052 0.67 0.26906
Target:  5'- -cGCuGGCCACCCuuGaCguGGGCCAUCAu -3'
miRNA:   3'- cuCG-UCGGUGGGu-C-GguCCUGGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 9898 0.66 0.282968
Target:  5'- -uGCAGguacgCACCCAGgCGcGGGCCGCCu -3'
miRNA:   3'- cuCGUCg----GUGGGUCgGU-CCUGGUGGu -5'
22233 5' -61.6 NC_005045.1 + 14129 0.67 0.26906
Target:  5'- cGGCGGUCGcaucuuCCCGGCgGGcACCGCCAu -3'
miRNA:   3'- cUCGUCGGU------GGGUCGgUCcUGGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 14212 0.69 0.167643
Target:  5'- aAGCGGCCcauggcgguGCCC-GCCGGGaagaugcgaccGCCGCCAc -3'
miRNA:   3'- cUCGUCGG---------UGGGuCGGUCC-----------UGGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 14825 0.72 0.101857
Target:  5'- -cGCcGCCACCCAGCaggaugugCAGGGCCgaGCCGg -3'
miRNA:   3'- cuCGuCGGUGGGUCG--------GUCCUGG--UGGU- -5'
22233 5' -61.6 NC_005045.1 + 15065 0.72 0.113964
Target:  5'- cGGgAGCCGCCa--CCGGGGCCACCu -3'
miRNA:   3'- cUCgUCGGUGGgucGGUCCUGGUGGu -5'
22233 5' -61.6 NC_005045.1 + 15228 0.71 0.138435
Target:  5'- -cGCAGCCACgUAGgCGGGGCCGUCGg -3'
miRNA:   3'- cuCGUCGGUGgGUCgGUCCUGGUGGU- -5'
22233 5' -61.6 NC_005045.1 + 16709 0.69 0.172241
Target:  5'- cAGCGGCCuugcgGCCCAGCCAGuGcaGCgCGCCc -3'
miRNA:   3'- cUCGUCGG-----UGGGUCGGUC-C--UG-GUGGu -5'
22233 5' -61.6 NC_005045.1 + 17900 0.74 0.081192
Target:  5'- gGAcCAGCCuCCuCGGUCAGGGCCACCu -3'
miRNA:   3'- -CUcGUCGGuGG-GUCGGUCCUGGUGGu -5'
22233 5' -61.6 NC_005045.1 + 18768 0.77 0.046982
Target:  5'- cGGCGGCgccagcaucaCGCuCCGGCCAGGGCCGCCc -3'
miRNA:   3'- cUCGUCG----------GUG-GGUCGGUCCUGGUGGu -5'
22233 5' -61.6 NC_005045.1 + 18836 0.67 0.26906
Target:  5'- cAGCuccGCCACCUgGGCCAGGACaagauGCCc -3'
miRNA:   3'- cUCGu--CGGUGGG-UCGGUCCUGg----UGGu -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.