miRNA display CGI


Results 1 - 20 of 33 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
28002 5' -62.7 NC_005887.1 + 33471 0.66 0.301976
Target:  5'- cGCGAGCGCguacgGcGUCGCgaucucgacgggCgCGCCGGcguUCa -3'
miRNA:   3'- aCGCUCGCGa----C-CAGCG------------G-GCGGCCu--AG- -5'
28002 5' -62.7 NC_005887.1 + 37862 0.66 0.287613
Target:  5'- aGCGGGCGC-GGUUGUuaGgCGGAg- -3'
miRNA:   3'- aCGCUCGCGaCCAGCGggCgGCCUag -5'
28002 5' -62.7 NC_005887.1 + 7198 0.66 0.287613
Target:  5'- cGUGcAGCGUgacGGcCGCCCguccguggcGCCGGAUUc -3'
miRNA:   3'- aCGC-UCGCGa--CCaGCGGG---------CGGCCUAG- -5'
28002 5' -62.7 NC_005887.1 + 5790 0.66 0.287613
Target:  5'- cUGCGAagcagGCGCacgaaCGCCUGCCGGAauUCg -3'
miRNA:   3'- -ACGCU-----CGCGacca-GCGGGCGGCCU--AG- -5'
28002 5' -62.7 NC_005887.1 + 7268 0.66 0.286207
Target:  5'- aGCGAcCGCgacaucggccccGGcCGCCCGCUguGGGUCg -3'
miRNA:   3'- aCGCUcGCGa-----------CCaGCGGGCGG--CCUAG- -5'
28002 5' -62.7 NC_005887.1 + 2954 0.66 0.280636
Target:  5'- cGCGGuCGCgaccacGGUUGCgCCGCCGGccUCg -3'
miRNA:   3'- aCGCUcGCGa-----CCAGCG-GGCGGCCu-AG- -5'
28002 5' -62.7 NC_005887.1 + 32752 0.66 0.280636
Target:  5'- cGCGuGCGCgccGGcgcgCGCCaugcaGCCGGcUCg -3'
miRNA:   3'- aCGCuCGCGa--CCa---GCGGg----CGGCCuAG- -5'
28002 5' -62.7 NC_005887.1 + 4636 0.66 0.280636
Target:  5'- cGCGAauacGCGCUGaaccugaUCGCCC-CCGGcGUCg -3'
miRNA:   3'- aCGCU----CGCGACc------AGCGGGcGGCC-UAG- -5'
28002 5' -62.7 NC_005887.1 + 10050 0.66 0.273793
Target:  5'- cUGCGGcGCGCcGGcuggcccgacgaUCGCCCcguguggaCCGGAUCa -3'
miRNA:   3'- -ACGCU-CGCGaCC------------AGCGGGc-------GGCCUAG- -5'
28002 5' -62.7 NC_005887.1 + 27641 0.66 0.267085
Target:  5'- cGCGAucgccGCGCccGGccCGCCCGCCGcGAc- -3'
miRNA:   3'- aCGCU-----CGCGa-CCa-GCGGGCGGC-CUag -5'
28002 5' -62.7 NC_005887.1 + 4888 0.66 0.260511
Target:  5'- cGCGA-CGaUGGUCGCCgaggGCCGGcgCg -3'
miRNA:   3'- aCGCUcGCgACCAGCGGg---CGGCCuaG- -5'
28002 5' -62.7 NC_005887.1 + 17229 0.67 0.254069
Target:  5'- cUGCG-GCGCUGGaUC-UCgGCCGGAc- -3'
miRNA:   3'- -ACGCuCGCGACC-AGcGGgCGGCCUag -5'
28002 5' -62.7 NC_005887.1 + 26831 0.67 0.235527
Target:  5'- cGCGuGCGCgagcgGGcgCGUCUGCCGGu-- -3'
miRNA:   3'- aCGCuCGCGa----CCa-GCGGGCGGCCuag -5'
28002 5' -62.7 NC_005887.1 + 20797 0.67 0.229603
Target:  5'- gGCGuaauuGCGCcGGUCGCCUGCaGcGUCg -3'
miRNA:   3'- aCGCu----CGCGaCCAGCGGGCGgCcUAG- -5'
28002 5' -62.7 NC_005887.1 + 41118 0.67 0.229603
Target:  5'- gUGCuGAGCGCcGcGcagCGCCCGCCaGAUa -3'
miRNA:   3'- -ACG-CUCGCGaC-Ca--GCGGGCGGcCUAg -5'
28002 5' -62.7 NC_005887.1 + 23443 0.67 0.229603
Target:  5'- gGUGAGCGCUGcGggcUGCCggUGCCGGGc- -3'
miRNA:   3'- aCGCUCGCGAC-Ca--GCGG--GCGGCCUag -5'
28002 5' -62.7 NC_005887.1 + 12332 0.68 0.218134
Target:  5'- aGCGAacuGCGUacGUCGCUCGCCGGc-- -3'
miRNA:   3'- aCGCU---CGCGacCAGCGGGCGGCCuag -5'
28002 5' -62.7 NC_005887.1 + 36976 0.68 0.207157
Target:  5'- gGCGucGCGCgGGUCgaGCUCGCCGGc-- -3'
miRNA:   3'- aCGCu-CGCGaCCAG--CGGGCGGCCuag -5'
28002 5' -62.7 NC_005887.1 + 29441 0.68 0.206621
Target:  5'- cGCGAaaccggcGUGCUGGcUCGCCgUGCC-GAUCa -3'
miRNA:   3'- aCGCU-------CGCGACC-AGCGG-GCGGcCUAG- -5'
28002 5' -62.7 NC_005887.1 + 23978 0.68 0.20185
Target:  5'- cGCGAGCGCcGG-CGCgCCGUcuacgCGGAagUCg -3'
miRNA:   3'- aCGCUCGCGaCCaGCG-GGCG-----GCCU--AG- -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.