miRNA display CGI


Results 1 - 20 of 55 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
19005 5' -53.7 NC_004684.1 + 14912 0.66 0.847814
Target:  5'- -uCGuGGCCauggucccgugGGGGUUUGACGAGUGugCg -3'
miRNA:   3'- auGC-UCGG-----------UCUCGGACUGCUCAUugG- -5'
19005 5' -53.7 NC_004684.1 + 67196 0.66 0.847813
Target:  5'- aGCGuuGCCAGGGCCaccuugGugGuGGUcccGACCa -3'
miRNA:   3'- aUGCu-CGGUCUCGGa-----CugC-UCA---UUGG- -5'
19005 5' -53.7 NC_004684.1 + 9871 0.66 0.847813
Target:  5'- gGCGGGCCAccGCCUcgggauccGGCGcAGgcACCu -3'
miRNA:   3'- aUGCUCGGUcuCGGA--------CUGC-UCauUGG- -5'
19005 5' -53.7 NC_004684.1 + 8674 0.66 0.839107
Target:  5'- gUGCG-GCCAGGuGCCUGugGccgugcgugaGGUcuguuAGCCg -3'
miRNA:   3'- -AUGCuCGGUCU-CGGACugC----------UCA-----UUGG- -5'
19005 5' -53.7 NC_004684.1 + 42198 0.66 0.839107
Target:  5'- -gUGGGCCguGGAGCUggUGGcCGAcGUGGCCg -3'
miRNA:   3'- auGCUCGG--UCUCGG--ACU-GCU-CAUUGG- -5'
19005 5' -53.7 NC_004684.1 + 58321 0.66 0.839107
Target:  5'- gGCGAcGCCGG-GUCaUGGCGcgcccGGUGGCCc -3'
miRNA:   3'- aUGCU-CGGUCuCGG-ACUGC-----UCAUUGG- -5'
19005 5' -53.7 NC_004684.1 + 44572 0.66 0.830182
Target:  5'- -uCGGGUCAG-GCagGACGuAGUGGCCa -3'
miRNA:   3'- auGCUCGGUCuCGgaCUGC-UCAUUGG- -5'
19005 5' -53.7 NC_004684.1 + 38680 0.66 0.830181
Target:  5'- gACGcGCCAGAaaGCCUGGagcgacaggGAGUGuucGCCg -3'
miRNA:   3'- aUGCuCGGUCU--CGGACUg--------CUCAU---UGG- -5'
19005 5' -53.7 NC_004684.1 + 9702 0.66 0.830181
Target:  5'- uUGCGcAGCCAu-GCCUGGcCGA-UGGCCa -3'
miRNA:   3'- -AUGC-UCGGUcuCGGACU-GCUcAUUGG- -5'
19005 5' -53.7 NC_004684.1 + 11099 0.66 0.811713
Target:  5'- gGCGcGCCAGGGCCgGGCuGAu--GCCu -3'
miRNA:   3'- aUGCuCGGUCUCGGaCUG-CUcauUGG- -5'
19005 5' -53.7 NC_004684.1 + 29086 0.67 0.802189
Target:  5'- -cCGAGCagauGAGCCUGGCcuggAGCCg -3'
miRNA:   3'- auGCUCGgu--CUCGGACUGcucaUUGG- -5'
19005 5' -53.7 NC_004684.1 + 10628 0.67 0.802189
Target:  5'- gUAUGGGCguGcuGGCCgagGACGAGgaGCUg -3'
miRNA:   3'- -AUGCUCGguC--UCGGa--CUGCUCauUGG- -5'
19005 5' -53.7 NC_004684.1 + 25873 0.67 0.802189
Target:  5'- cUGCGGuGCCAGGGCCU--CGuAGcgGGCCa -3'
miRNA:   3'- -AUGCU-CGGUCUCGGAcuGC-UCa-UUGG- -5'
19005 5' -53.7 NC_004684.1 + 55302 0.67 0.802189
Target:  5'- aACGGGUgGGAcgGCCUGccgauCGAGUucGCCg -3'
miRNA:   3'- aUGCUCGgUCU--CGGACu----GCUCAu-UGG- -5'
19005 5' -53.7 NC_004684.1 + 9554 0.67 0.802189
Target:  5'- gUugGAGCCGGugcGCC--GCGAacacGUGGCCg -3'
miRNA:   3'- -AugCUCGGUCu--CGGacUGCU----CAUUGG- -5'
19005 5' -53.7 NC_004684.1 + 15284 0.67 0.802189
Target:  5'- cGCGGuGCaccugcuGGGCCUGGuCGAcGUGGCCg -3'
miRNA:   3'- aUGCU-CGgu-----CUCGGACU-GCU-CAUUGG- -5'
19005 5' -53.7 NC_004684.1 + 54795 0.67 0.782616
Target:  5'- cGCGcGCCAgGAGCCgaugacccUGGCuGAGUucGACCg -3'
miRNA:   3'- aUGCuCGGU-CUCGG--------ACUG-CUCA--UUGG- -5'
19005 5' -53.7 NC_004684.1 + 17515 0.67 0.772588
Target:  5'- cGCGAGCgCGGuGCCacgccgGACGAcGUggUCg -3'
miRNA:   3'- aUGCUCG-GUCuCGGa-----CUGCU-CAuuGG- -5'
19005 5' -53.7 NC_004684.1 + 8442 0.67 0.762415
Target:  5'- -cCGGGCCAGGGaaCCUGACuccccGGUGcgcGCCa -3'
miRNA:   3'- auGCUCGGUCUC--GGACUGc----UCAU---UGG- -5'
19005 5' -53.7 NC_004684.1 + 4253 0.67 0.752107
Target:  5'- -cUGAGCCGGuGCCcGGCGGaaUGGCCu -3'
miRNA:   3'- auGCUCGGUCuCGGaCUGCUc-AUUGG- -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.