miRNA display CGI


Results 1 - 20 of 21 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
10561 3' -57.9 NC_002687.1 + 11576 0.66 0.947074
Target:  5'- uUGCGUCACU-CCAUGcGGCA-CAGGg- -3'
miRNA:   3'- -ACGCGGUGAuGGUGC-UCGUcGUCCac -5'
10561 3' -57.9 NC_002687.1 + 63442 0.66 0.938427
Target:  5'- cGUG-UGCUACCugGAGUGGCuGGUu -3'
miRNA:   3'- aCGCgGUGAUGGugCUCGUCGuCCAc -5'
10561 3' -57.9 NC_002687.1 + 304198 0.66 0.937516
Target:  5'- gGC-CCGCUgcugucaucggugGCCGCGAugacguuGguGCGGGUGg -3'
miRNA:   3'- aCGcGGUGA-------------UGGUGCU-------CguCGUCCAC- -5'
10561 3' -57.9 NC_002687.1 + 197941 0.67 0.913053
Target:  5'- aGCGCCGagGCCGa-AGCAGCcgaAGGUGu -3'
miRNA:   3'- aCGCGGUgaUGGUgcUCGUCG---UCCAC- -5'
10561 3' -57.9 NC_002687.1 + 241520 0.67 0.913053
Target:  5'- cGcCGCCACcguugGCCACc-GCGGCGGGg- -3'
miRNA:   3'- aC-GCGGUGa----UGGUGcuCGUCGUCCac -5'
10561 3' -57.9 NC_002687.1 + 80803 0.67 0.901402
Target:  5'- -aCGCCuCUgucaaagaacgcACgCACGAGCAGUAGGUa -3'
miRNA:   3'- acGCGGuGA------------UG-GUGCUCGUCGUCCAc -5'
10561 3' -57.9 NC_002687.1 + 97171 0.68 0.888911
Target:  5'- cGUGCCGCUAaacaacgauCCugucgcgacauACGAGCAGCGcGUGg -3'
miRNA:   3'- aCGCGGUGAU---------GG-----------UGCUCGUCGUcCAC- -5'
10561 3' -57.9 NC_002687.1 + 328236 0.68 0.878329
Target:  5'- cGUGCCAC-ACgagaucaaagaucggCGCGGGCAGCAguuguuGGUGg -3'
miRNA:   3'- aCGCGGUGaUG---------------GUGCUCGUCGU------CCAC- -5'
10561 3' -57.9 NC_002687.1 + 291824 0.68 0.861511
Target:  5'- cGCGCC---ACCAUGGGC-GCAGGa- -3'
miRNA:   3'- aCGCGGugaUGGUGCUCGuCGUCCac -5'
10561 3' -57.9 NC_002687.1 + 291990 0.69 0.838986
Target:  5'- cGCGUcccugCACUACCauaaACGuGCGGCGGGg- -3'
miRNA:   3'- aCGCG-----GUGAUGG----UGCuCGUCGUCCac -5'
10561 3' -57.9 NC_002687.1 + 307630 0.69 0.838986
Target:  5'- gGUGgUGCUGgCACGGGCGGCGgcGGUGc -3'
miRNA:   3'- aCGCgGUGAUgGUGCUCGUCGU--CCAC- -5'
10561 3' -57.9 NC_002687.1 + 158751 0.69 0.838986
Target:  5'- --gGCCGCUgaaaGCCGCGGGCgaGGCcGGUGc -3'
miRNA:   3'- acgCGGUGA----UGGUGCUCG--UCGuCCAC- -5'
10561 3' -57.9 NC_002687.1 + 304238 0.69 0.838986
Target:  5'- aGCGCUACUGCUGCu-GCAGCuacGGUu -3'
miRNA:   3'- aCGCGGUGAUGGUGcuCGUCGu--CCAc -5'
10561 3' -57.9 NC_002687.1 + 301519 0.69 0.83113
Target:  5'- gGCGaUCACUucaACCuACGGGCAGaGGGUGa -3'
miRNA:   3'- aCGC-GGUGA---UGG-UGCUCGUCgUCCAC- -5'
10561 3' -57.9 NC_002687.1 + 11333 0.69 0.814935
Target:  5'- aGCgGCgGC-AgCAgGAGCAGCGGGUGu -3'
miRNA:   3'- aCG-CGgUGaUgGUgCUCGUCGUCCAC- -5'
10561 3' -57.9 NC_002687.1 + 55497 0.7 0.798141
Target:  5'- gUGCGUgGCaugGuuACGAGCAcgcGCAGGUGg -3'
miRNA:   3'- -ACGCGgUGa--UggUGCUCGU---CGUCCAC- -5'
10561 3' -57.9 NC_002687.1 + 125478 0.7 0.771953
Target:  5'- gGCG-CACUGCCACGAGCAaaacuuucccucGCAGa-- -3'
miRNA:   3'- aCGCgGUGAUGGUGCUCGU------------CGUCcac -5'
10561 3' -57.9 NC_002687.1 + 309221 0.72 0.697744
Target:  5'- cUGaCGCCcCcACCAcCGAGCAGCGGGa- -3'
miRNA:   3'- -AC-GCGGuGaUGGU-GCUCGUCGUCCac -5'
10561 3' -57.9 NC_002687.1 + 254631 0.76 0.452183
Target:  5'- cGCGUgGCUGCUGCGAcaccgucuGCAGCAGGUu -3'
miRNA:   3'- aCGCGgUGAUGGUGCU--------CGUCGUCCAc -5'
10561 3' -57.9 NC_002687.1 + 81705 0.76 0.434942
Target:  5'- aGCGCCACcauuuuguugggUGCCGCGAGguGUgaugAGGUGu -3'
miRNA:   3'- aCGCGGUG------------AUGGUGCUCguCG----UCCAC- -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.