miRNA display CGI


Results 1 - 19 of 19 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
23392 5' -57.3 NC_005259.1 + 64215 0.66 0.648147
Target:  5'- cGCCGguCGGCaGCCCGGuaUCGGGGuCGAUa- -3'
miRNA:   3'- -UGGC--GUCG-CGGGUC--AGCUCC-GUUAac -5'
23392 5' -57.3 NC_005259.1 + 25089 0.66 0.626538
Target:  5'- cGCCGCuGCGCCCGcccCGAgcaagGGCAAg-- -3'
miRNA:   3'- -UGGCGuCGCGGGUca-GCU-----CCGUUaac -5'
23392 5' -57.3 NC_005259.1 + 68255 0.67 0.604949
Target:  5'- gACCGCAgccuuGCGCUC-GUCGuAGGCAc--- -3'
miRNA:   3'- -UGGCGU-----CGCGGGuCAGC-UCCGUuaac -5'
23392 5' -57.3 NC_005259.1 + 62824 0.67 0.604949
Target:  5'- cGCCGCu-UGCCCgcgaGGUCGAGcgcGCGGUUGa -3'
miRNA:   3'- -UGGCGucGCGGG----UCAGCUC---CGUUAAC- -5'
23392 5' -57.3 NC_005259.1 + 26965 0.68 0.54098
Target:  5'- -gCGCAGCGCCguGcCGAacucGGCGGUg- -3'
miRNA:   3'- ugGCGUCGCGGguCaGCU----CCGUUAac -5'
23392 5' -57.3 NC_005259.1 + 17765 0.68 0.530516
Target:  5'- cGCCGC-GCGCCgGGcCGAGcGCAc--- -3'
miRNA:   3'- -UGGCGuCGCGGgUCaGCUC-CGUuaac -5'
23392 5' -57.3 NC_005259.1 + 6270 0.68 0.529473
Target:  5'- cGCCGCcGCGCCUaccucguGGUCGAGugguGCGGUa- -3'
miRNA:   3'- -UGGCGuCGCGGG-------UCAGCUC----CGUUAac -5'
23392 5' -57.3 NC_005259.1 + 56912 0.68 0.489465
Target:  5'- cGCCGCAGCaggcguGCCCGcGUCGGugagcauGCGGUUGg -3'
miRNA:   3'- -UGGCGUCG------CGGGU-CAGCUc------CGUUAAC- -5'
23392 5' -57.3 NC_005259.1 + 35875 0.68 0.489465
Target:  5'- cACCGCAGcCGCC--GcCGAGGCAGa-- -3'
miRNA:   3'- -UGGCGUC-GCGGguCaGCUCCGUUaac -5'
23392 5' -57.3 NC_005259.1 + 23902 0.69 0.479432
Target:  5'- aGCCGCcGCGCCCGccGUCGAaauacaacggucGGCAc--- -3'
miRNA:   3'- -UGGCGuCGCGGGU--CAGCU------------CCGUuaac -5'
23392 5' -57.3 NC_005259.1 + 8193 0.69 0.479432
Target:  5'- uGCCGUuuacGCGCCCGauGUCG-GGCAAc-- -3'
miRNA:   3'- -UGGCGu---CGCGGGU--CAGCuCCGUUaac -5'
23392 5' -57.3 NC_005259.1 + 4424 0.69 0.44996
Target:  5'- cACCGC-GCGCCCgaGGUCGAGccgcccguGCGAgUGg -3'
miRNA:   3'- -UGGCGuCGCGGG--UCAGCUC--------CGUUaAC- -5'
23392 5' -57.3 NC_005259.1 + 57520 0.7 0.421513
Target:  5'- cACCGCAGCGCUU-GcCGAcGGCGAUg- -3'
miRNA:   3'- -UGGCGUCGCGGGuCaGCU-CCGUUAac -5'
23392 5' -57.3 NC_005259.1 + 43281 0.7 0.415955
Target:  5'- gACCGCAGCGCCCGccGcCGAcgcgcccgccugaauGGCugcGUUGg -3'
miRNA:   3'- -UGGCGUCGCGGGU--CaGCU---------------CCGu--UAAC- -5'
23392 5' -57.3 NC_005259.1 + 29938 0.71 0.35125
Target:  5'- gGCCGCcacGCgGCCCGGUCGcGGCuggUGg -3'
miRNA:   3'- -UGGCGu--CG-CGGGUCAGCuCCGuuaAC- -5'
23392 5' -57.3 NC_005259.1 + 34715 0.71 0.343073
Target:  5'- uGCCGCgcgAGCGCCUcGUCGGGGaaaccGUUGg -3'
miRNA:   3'- -UGGCG---UCGCGGGuCAGCUCCgu---UAAC- -5'
23392 5' -57.3 NC_005259.1 + 26676 0.71 0.335034
Target:  5'- gGCgGCAGCccGCCCA-UCGAGGCGGg-- -3'
miRNA:   3'- -UGgCGUCG--CGGGUcAGCUCCGUUaac -5'
23392 5' -57.3 NC_005259.1 + 63171 0.72 0.319371
Target:  5'- cGCCGCAGCGCC--GcCGAGGUGAUc- -3'
miRNA:   3'- -UGGCGUCGCGGguCaGCUCCGUUAac -5'
23392 5' -57.3 NC_005259.1 + 58780 0.76 0.177796
Target:  5'- -gCGCuGUGCgCCGGUCGAGGCGGUg- -3'
miRNA:   3'- ugGCGuCGCG-GGUCAGCUCCGUUAac -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.