miRNA display CGI


Results 1 - 20 of 23 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
17993 3' -50.1 NC_004665.1 + 16261 0.66 0.899554
Target:  5'- gCCCGcAAUGuagCCCUcUGAGuaGCCCu -3'
miRNA:   3'- -GGGUaUUACua-GGGGuACUCuaCGGG- -5'
17993 3' -50.1 NC_004665.1 + 18024 0.66 0.899554
Target:  5'- --aGUGAUGGUCaguaCCCucaAGAUGCCCu -3'
miRNA:   3'- gggUAUUACUAG----GGGuacUCUACGGG- -5'
17993 3' -50.1 NC_004665.1 + 25136 0.66 0.883508
Target:  5'- aCCCAUuggcacccgacgaGAUGAUgCCCA-GAGcguucgacagGCCCg -3'
miRNA:   3'- -GGGUA-------------UUACUAgGGGUaCUCua--------CGGG- -5'
17993 3' -50.1 NC_004665.1 + 22221 0.66 0.876237
Target:  5'- gCCCA-AcgGGUCUgCCGaGaAGGUGCCCg -3'
miRNA:   3'- -GGGUaUuaCUAGG-GGUaC-UCUACGGG- -5'
17993 3' -50.1 NC_004665.1 + 9355 0.67 0.859264
Target:  5'- aCCCAUGAagcgaaUGGUCgCCCcUucGAUGCCa -3'
miRNA:   3'- -GGGUAUU------ACUAG-GGGuAcuCUACGGg -5'
17993 3' -50.1 NC_004665.1 + 11296 0.67 0.840294
Target:  5'- aCCAcGAuUGGucggccuUCCUCGUGAGGcuUGCCCu -3'
miRNA:   3'- gGGUaUU-ACU-------AGGGGUACUCU--ACGGG- -5'
17993 3' -50.1 NC_004665.1 + 19724 0.67 0.831826
Target:  5'- cCCCAgc---AUCCCCAgcGGcUGCCCg -3'
miRNA:   3'- -GGGUauuacUAGGGGUacUCuACGGG- -5'
17993 3' -50.1 NC_004665.1 + 33750 0.67 0.831826
Target:  5'- ----cAGUGGUCCCCAa-AGGUGUCCc -3'
miRNA:   3'- ggguaUUACUAGGGGUacUCUACGGG- -5'
17993 3' -50.1 NC_004665.1 + 9335 0.67 0.822193
Target:  5'- aCCuu-GUGAgaCUCCGUGAgGAUGCUCg -3'
miRNA:   3'- gGGuauUACUa-GGGGUACU-CUACGGG- -5'
17993 3' -50.1 NC_004665.1 + 22572 0.68 0.791993
Target:  5'- aCCA--GUGAUCUCCAcGAGGUaaCCCg -3'
miRNA:   3'- gGGUauUACUAGGGGUaCUCUAc-GGG- -5'
17993 3' -50.1 NC_004665.1 + 18947 0.68 0.791993
Target:  5'- cCCCGgu-UGAaCCCCAgc-GGUGUCCa -3'
miRNA:   3'- -GGGUauuACUaGGGGUacuCUACGGG- -5'
17993 3' -50.1 NC_004665.1 + 27798 0.69 0.749165
Target:  5'- cUCCAa---GAUCagCCAUGAgGGUGCCCa -3'
miRNA:   3'- -GGGUauuaCUAGg-GGUACU-CUACGGG- -5'
17993 3' -50.1 NC_004665.1 + 22518 0.69 0.749165
Target:  5'- cCUCGUGGaGAUCaCUgGUGAGucUGCCCg -3'
miRNA:   3'- -GGGUAUUaCUAG-GGgUACUCu-ACGGG- -5'
17993 3' -50.1 NC_004665.1 + 9037 0.69 0.726894
Target:  5'- aCCAgcGAUGAUCgcgccgaugCCCAguccaaUGAGAUGCUCa -3'
miRNA:   3'- gGGUa-UUACUAG---------GGGU------ACUCUACGGG- -5'
17993 3' -50.1 NC_004665.1 + 30723 0.7 0.692723
Target:  5'- uCUCGgAGUG-UCCCCAUGAGcagcucggaucAUGUCCa -3'
miRNA:   3'- -GGGUaUUACuAGGGGUACUC-----------UACGGG- -5'
17993 3' -50.1 NC_004665.1 + 14545 0.71 0.622949
Target:  5'- aCCCGUGAggaagcccguuUGAUCCCCGcUGAGAagaucGCUg -3'
miRNA:   3'- -GGGUAUU-----------ACUAGGGGU-ACUCUa----CGGg -5'
17993 3' -50.1 NC_004665.1 + 3957 0.71 0.622949
Target:  5'- aCCGUGAUGGUCUggUUGUGuGGAUGCUCg -3'
miRNA:   3'- gGGUAUUACUAGG--GGUAC-UCUACGGG- -5'
17993 3' -50.1 NC_004665.1 + 37326 0.72 0.542072
Target:  5'- cCCCAUca--GUCCCCAuUGAGAUuCCCa -3'
miRNA:   3'- -GGGUAuuacUAGGGGU-ACUCUAcGGG- -5'
17993 3' -50.1 NC_004665.1 + 220 0.72 0.542072
Target:  5'- cCCCAUca--GUCCCCAuUGAGAUuCCCa -3'
miRNA:   3'- -GGGUAuuacUAGGGGU-ACUCUAcGGG- -5'
17993 3' -50.1 NC_004665.1 + 28964 0.73 0.501775
Target:  5'- aCCCGUAugccgaucaacuccgAUGAUUCCCuugaggacuucaAUGGGGUGCUCu -3'
miRNA:   3'- -GGGUAU---------------UACUAGGGG------------UACUCUACGGG- -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.