miRNA display CGI


Results 21 - 40 of 111 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
28135 3' -54.6 NC_005887.1 + 8027 0.66 0.6758
Target:  5'- ---uGUCGCCGAuCUucguCAGCGcGCGGUUa -3'
miRNA:   3'- cuacUAGCGGCU-GAu---GUUGC-CGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 33750 0.66 0.664646
Target:  5'- --aGcgCGCCGGCcuuCAcgagcaucuggcGCGGCGuGCCg -3'
miRNA:   3'- cuaCuaGCGGCUGau-GU------------UGCCGC-CGG- -5'
28135 3' -54.6 NC_005887.1 + 33141 0.66 0.664646
Target:  5'- --cGGUagaagcaGCCGACcgUGCcGCGGCGGUg -3'
miRNA:   3'- cuaCUAg------CGGCUG--AUGuUGCCGCCGg -5'
28135 3' -54.6 NC_005887.1 + 26388 0.66 0.663529
Target:  5'- -----gCGCCGGCcacggccugaaccUGCAggACGGCGGCa -3'
miRNA:   3'- cuacuaGCGGCUG-------------AUGU--UGCCGCCGg -5'
28135 3' -54.6 NC_005887.1 + 32396 0.67 0.657938
Target:  5'- ----uUCGCCGGCaucggcgugugguccUACGcacuGCGGCGcGCCg -3'
miRNA:   3'- cuacuAGCGGCUG---------------AUGU----UGCCGC-CGG- -5'
28135 3' -54.6 NC_005887.1 + 38762 0.67 0.653461
Target:  5'- uGGUGAUCGCgaGGC-ACAACGGUGa-- -3'
miRNA:   3'- -CUACUAGCGg-CUGaUGUUGCCGCcgg -5'
28135 3' -54.6 NC_005887.1 + 27128 0.67 0.642255
Target:  5'- ----uUCGUCGACUcguCGGCGaucacGCGGCCg -3'
miRNA:   3'- cuacuAGCGGCUGAu--GUUGC-----CGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 18617 0.67 0.642255
Target:  5'- ---cGUUGCuCGGCagcGCGAuCGGCGGCCc -3'
miRNA:   3'- cuacUAGCG-GCUGa--UGUU-GCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 35550 0.67 0.642255
Target:  5'- cGAUGGUCuGCuCGACaugUGCGGCGaGC-GCCg -3'
miRNA:   3'- -CUACUAG-CG-GCUG---AUGUUGC-CGcCGG- -5'
28135 3' -54.6 NC_005887.1 + 24319 0.67 0.642255
Target:  5'- --cGAcUCGCCGugGCUGCugcCGGCacguGGCCa -3'
miRNA:   3'- cuaCU-AGCGGC--UGAUGuu-GCCG----CCGG- -5'
28135 3' -54.6 NC_005887.1 + 4701 0.67 0.642255
Target:  5'- --aGAUCcUUGAUcGCGcCGGCGGCCa -3'
miRNA:   3'- cuaCUAGcGGCUGaUGUuGCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 618 0.67 0.640013
Target:  5'- --cGGUCuucgcgcuguauCCGGCgcgGCGcGCGGCGGCCg -3'
miRNA:   3'- cuaCUAGc-----------GGCUGa--UGU-UGCCGCCGG- -5'
28135 3' -54.6 NC_005887.1 + 38442 0.67 0.63104
Target:  5'- --aGAUCGCaaugugcaaCGA--ACGACGGCGGaCCu -3'
miRNA:   3'- cuaCUAGCG---------GCUgaUGUUGCCGCC-GG- -5'
28135 3' -54.6 NC_005887.1 + 32644 0.67 0.624311
Target:  5'- uGUGAUCGaCCGugUGCAgcucaccggugucgcGCGuGCGcGCUu -3'
miRNA:   3'- cUACUAGC-GGCugAUGU---------------UGC-CGC-CGG- -5'
28135 3' -54.6 NC_005887.1 + 24568 0.67 0.624311
Target:  5'- cAUGAUCGCCGucaGCUucACAccugcgcauggguucGCGGCgaugaucuugcGGCCg -3'
miRNA:   3'- cUACUAGCGGC---UGA--UGU---------------UGCCG-----------CCGG- -5'
28135 3' -54.6 NC_005887.1 + 14102 0.67 0.619826
Target:  5'- ---cAUCGUCucaGGCUGCGcCGGCGGCg -3'
miRNA:   3'- cuacUAGCGG---CUGAUGUuGCCGCCGg -5'
28135 3' -54.6 NC_005887.1 + 12058 0.67 0.619826
Target:  5'- --aGG-CGCCGcGCUGCAGCaGGuCGGCa -3'
miRNA:   3'- cuaCUaGCGGC-UGAUGUUG-CC-GCCGg -5'
28135 3' -54.6 NC_005887.1 + 36513 0.67 0.619826
Target:  5'- --cGGUCGaCCG-CaGCAucggGCGGCGGCa -3'
miRNA:   3'- cuaCUAGC-GGCuGaUGU----UGCCGCCGg -5'
28135 3' -54.6 NC_005887.1 + 14696 0.67 0.613102
Target:  5'- -----gCGCCGGCUGCcgugagcgcgcccucGACGGCgccgacGGCCg -3'
miRNA:   3'- cuacuaGCGGCUGAUG---------------UUGCCG------CCGG- -5'
28135 3' -54.6 NC_005887.1 + 36076 0.67 0.608623
Target:  5'- -----aCGCCGucgauguacaGCUGCAcguaGGCGGCCa -3'
miRNA:   3'- cuacuaGCGGC----------UGAUGUug--CCGCCGG- -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.