miRNA display CGI


Results 1 - 20 of 57 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
2888 5' -52.4 NC_001493.1 + 129986 1.12 0.00406
Target:  5'- cCUGGACAGGUGAUCGAGGAUCAACCCc -3'
miRNA:   3'- -GACCUGUCCACUAGCUCCUAGUUGGG- -5'
2888 5' -52.4 NC_001493.1 + 131898 0.66 0.969175
Target:  5'- aUGGACAggaaggucucGGUGAgugCGGGGAaggucuccgcgccaUCaAACCCc -3'
miRNA:   3'- gACCUGU----------CCACUa--GCUCCU--------------AG-UUGGG- -5'
2888 5' -52.4 NC_001493.1 + 60399 0.66 0.972692
Target:  5'- --cGAUAGGUcacacguGUCGAGGGUCAccaagccaccggcGCCCg -3'
miRNA:   3'- gacCUGUCCAc------UAGCUCCUAGU-------------UGGG- -5'
2888 5' -52.4 NC_001493.1 + 18152 0.66 0.98253
Target:  5'- cCUGGACGcGGccccgaaacUGAUCGAGugggaGGUCucgggGACCCg -3'
miRNA:   3'- -GACCUGU-CC---------ACUAGCUC-----CUAG-----UUGGG- -5'
2888 5' -52.4 NC_001493.1 + 23279 0.69 0.922458
Target:  5'- gCUGGAgAGGUuguuGGUgGAGGGUCAcguaucgACCg -3'
miRNA:   3'- -GACCUgUCCA----CUAgCUCCUAGU-------UGGg -5'
2888 5' -52.4 NC_001493.1 + 66525 0.69 0.923023
Target:  5'- -gGGAC-GGUGggCGAGGGUgggcagaaCGACCUc -3'
miRNA:   3'- gaCCUGuCCACuaGCUCCUA--------GUUGGG- -5'
2888 5' -52.4 NC_001493.1 + 71944 0.68 0.938783
Target:  5'- -gGGACAGGUGAagGccaucuugaacGGGAagGGCCUg -3'
miRNA:   3'- gaCCUGUCCACUagC-----------UCCUagUUGGG- -5'
2888 5' -52.4 NC_001493.1 + 80401 0.68 0.943536
Target:  5'- -gGGACA-GUGGUCGccgcacgccuucGGGAUCucuCCCa -3'
miRNA:   3'- gaCCUGUcCACUAGC------------UCCUAGuu-GGG- -5'
2888 5' -52.4 NC_001493.1 + 3351 0.67 0.952303
Target:  5'- -cGGGguGGUGAUCGAcGAUguacACCCu -3'
miRNA:   3'- gaCCUguCCACUAGCUcCUAgu--UGGG- -5'
2888 5' -52.4 NC_001493.1 + 111823 0.67 0.96698
Target:  5'- -gGGGCuGGUGcUCGcGGGUacGCCCg -3'
miRNA:   3'- gaCCUGuCCACuAGCuCCUAguUGGG- -5'
2888 5' -52.4 NC_001493.1 + 106153 0.67 0.960471
Target:  5'- -gGGGCAGGUGcccAUgGAGGugacgggugacuucCGACCCg -3'
miRNA:   3'- gaCCUGUCCAC---UAgCUCCua------------GUUGGG- -5'
2888 5' -52.4 NC_001493.1 + 118905 0.67 0.952303
Target:  5'- -cGGGguGGUGAUCGAcGAUguacACCCu -3'
miRNA:   3'- gaCCUguCCACUAGCUcCUAgu--UGGG- -5'
2888 5' -52.4 NC_001493.1 + 14432 1.12 0.00406
Target:  5'- cCUGGACAGGUGAUCGAGGAUCAACCCc -3'
miRNA:   3'- -GACCUGUCCACUAGCUCCUAGUUGGG- -5'
2888 5' -52.4 NC_001493.1 + 82418 0.67 0.963656
Target:  5'- aUGGACagaacGGGuUGAacgcgacaauaUCGGGGGUggcCAGCCCg -3'
miRNA:   3'- gACCUG-----UCC-ACU-----------AGCUCCUA---GUUGGG- -5'
2888 5' -52.4 NC_001493.1 + 36865 0.73 0.725602
Target:  5'- -cGGACcGGagagGGUCGGGGGUUAuuACCCa -3'
miRNA:   3'- gaCCUGuCCa---CUAGCUCCUAGU--UGGG- -5'
2888 5' -52.4 NC_001493.1 + 19087 0.68 0.948042
Target:  5'- -cGcGCGGGUGccUGAGGAcCAACCCc -3'
miRNA:   3'- gaCcUGUCCACuaGCUCCUaGUUGGG- -5'
2888 5' -52.4 NC_001493.1 + 109158 0.67 0.966333
Target:  5'- cCUGGACAGccgccgcaCGGGGAgagauggCGACCCg -3'
miRNA:   3'- -GACCUGUCcacua---GCUCCUa------GUUGGG- -5'
2888 5' -52.4 NC_001493.1 + 16344 0.66 0.969175
Target:  5'- aUGGACAggaaggucucGGUGAgugCGGGGAaggucuccgcgccaUCaAACCCc -3'
miRNA:   3'- gACCUGU----------CCACUa--GCUCCU--------------AG-UUGGG- -5'
2888 5' -52.4 NC_001493.1 + 22099 0.69 0.898506
Target:  5'- -cGGACAGGgucgcGAUCG-GGA-CGuACCCg -3'
miRNA:   3'- gaCCUGUCCa----CUAGCuCCUaGU-UGGG- -5'
2888 5' -52.4 NC_001493.1 + 25596 0.68 0.93378
Target:  5'- -gGGACAGGaGGUUcgGGGGGUCcACCg -3'
miRNA:   3'- gaCCUGUCCaCUAG--CUCCUAGuUGGg -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.