miRNA display CGI


Results 1 - 20 of 21 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
7580 3' -45.7 NC_001962.1 + 110673 0.66 0.999982
Target:  5'- -gAGAUGGCGcacuagguuuCCGCAUAuacugAUCGACu -3'
miRNA:   3'- cgUUUGCUGCu---------GGCGUAUua---UAGCUG- -5'
7580 3' -45.7 NC_001962.1 + 26825 0.66 0.999975
Target:  5'- gGC-AACGACuAUCGUAUAAUGUuaaaaccgCGACg -3'
miRNA:   3'- -CGuUUGCUGcUGGCGUAUUAUA--------GCUG- -5'
7580 3' -45.7 NC_001962.1 + 114032 0.66 0.999975
Target:  5'- ---uGCGGCGGuaGUAUAuuauUAUCGACa -3'
miRNA:   3'- cguuUGCUGCUggCGUAUu---AUAGCUG- -5'
7580 3' -45.7 NC_001962.1 + 49797 0.66 0.999945
Target:  5'- --uGACGAUGACaCGCAUGuggucauguuucaaaAUgaaGUCGACa -3'
miRNA:   3'- cguUUGCUGCUG-GCGUAU---------------UA---UAGCUG- -5'
7580 3' -45.7 NC_001962.1 + 49908 0.66 0.999938
Target:  5'- aGCAu-CGGuCGAUUGCAUAAUGUCu-- -3'
miRNA:   3'- -CGUuuGCU-GCUGGCGUAUUAUAGcug -5'
7580 3' -45.7 NC_001962.1 + 9194 0.66 0.999938
Target:  5'- aCGAuCGGCGACaGCAgc--GUCGACa -3'
miRNA:   3'- cGUUuGCUGCUGgCGUauuaUAGCUG- -5'
7580 3' -45.7 NC_001962.1 + 76772 0.66 0.999936
Target:  5'- cGCAAacuaaacGCGGCGACCGUGUuAAUA-CGcCa -3'
miRNA:   3'- -CGUU-------UGCUGCUGGCGUA-UUAUaGCuG- -5'
7580 3' -45.7 NC_001962.1 + 6704 0.67 0.999917
Target:  5'- cGCAAACaguuugggcuuGACGACCGUAacGUugUGACa -3'
miRNA:   3'- -CGUUUG-----------CUGCUGGCGUauUAuaGCUG- -5'
7580 3' -45.7 NC_001962.1 + 77284 0.67 0.999857
Target:  5'- aGCAGcguCGugG-CCGCAUAgaaAUGgcccUCGACg -3'
miRNA:   3'- -CGUUu--GCugCuGGCGUAU---UAU----AGCUG- -5'
7580 3' -45.7 NC_001962.1 + 26907 0.68 0.99976
Target:  5'- cGUAGGCGuCGugCGCGgcaacuugAUUGACg -3'
miRNA:   3'- -CGUUUGCuGCugGCGUauua----UAGCUG- -5'
7580 3' -45.7 NC_001962.1 + 102044 0.69 0.99905
Target:  5'- cGCGGGCGaguugGCGGCCGCAUGAacguucaaaGUUGAa -3'
miRNA:   3'- -CGUUUGC-----UGCUGGCGUAUUa--------UAGCUg -5'
7580 3' -45.7 NC_001962.1 + 29810 0.69 0.99905
Target:  5'- gGCAAACGGCcgcauaaccaGGCCGCc--GUGUCGuCg -3'
miRNA:   3'- -CGUUUGCUG----------CUGGCGuauUAUAGCuG- -5'
7580 3' -45.7 NC_001962.1 + 87817 0.69 0.998833
Target:  5'- aGCAcauuaugaaaccGACGGCGGCCGaCAUuAUAUCa-- -3'
miRNA:   3'- -CGU------------UUGCUGCUGGC-GUAuUAUAGcug -5'
7580 3' -45.7 NC_001962.1 + 104241 0.7 0.99827
Target:  5'- gGUcAACGACG-CaaaCAUGAUGUCGACg -3'
miRNA:   3'- -CGuUUGCUGCuGgc-GUAUUAUAGCUG- -5'
7580 3' -45.7 NC_001962.1 + 4979 0.7 0.997912
Target:  5'- cGCAu-CGACGACCGCAUcAAacUCG-Cu -3'
miRNA:   3'- -CGUuuGCUGCUGGCGUA-UUauAGCuG- -5'
7580 3' -45.7 NC_001962.1 + 18912 0.7 0.996446
Target:  5'- -aGAACGgcGCGGCCGUu---UGUCGACu -3'
miRNA:   3'- cgUUUGC--UGCUGGCGuauuAUAGCUG- -5'
7580 3' -45.7 NC_001962.1 + 94005 0.7 0.996446
Target:  5'- uGCAGGCG-CGucuCCGCGUgGAUAUCguGACg -3'
miRNA:   3'- -CGUUUGCuGCu--GGCGUA-UUAUAG--CUG- -5'
7580 3' -45.7 NC_001962.1 + 1361 0.71 0.9958
Target:  5'- -gGGACGACGGCgGCAaua-AUCGGCc -3'
miRNA:   3'- cgUUUGCUGCUGgCGUauuaUAGCUG- -5'
7580 3' -45.7 NC_001962.1 + 82010 0.73 0.977996
Target:  5'- cGCAAAUGGCGGCCGUcgAcAUGUUG-Ca -3'
miRNA:   3'- -CGUUUGCUGCUGGCGuaU-UAUAGCuG- -5'
7580 3' -45.7 NC_001962.1 + 29350 0.75 0.95871
Target:  5'- cGCAAGCcACGcCCGag-GAUAUCGACg -3'
miRNA:   3'- -CGUUUGcUGCuGGCguaUUAUAGCUG- -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.