miRNA display CGI


Results 1 - 20 of 45 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
12190 3' -55.4 NC_003309.1 + 3966 0.7 0.45401
Target:  5'- uGCGA-CCAAGGCAcgucGGCGcuccgauGCGGCaGCCa -3'
miRNA:   3'- -CGUUcGGUUCCGU----UCGC-------UGCUGcCGG- -5'
12190 3' -55.4 NC_003309.1 + 4680 0.68 0.602737
Target:  5'- cGCGAGCCGAaacgcuacGGCGcGCauucgcgccuuGACGAuCGGCUc -3'
miRNA:   3'- -CGUUCGGUU--------CCGUuCG-----------CUGCU-GCCGG- -5'
12190 3' -55.4 NC_003309.1 + 5060 0.74 0.269516
Target:  5'- cGCGgcGGCCGGuGCc-GCGACGGCGGUCg -3'
miRNA:   3'- -CGU--UCGGUUcCGuuCGCUGCUGCCGG- -5'
12190 3' -55.4 NC_003309.1 + 5142 0.66 0.668755
Target:  5'- cGCGcGCCGccGCGAGCGcACGuaccauGCGcGCCa -3'
miRNA:   3'- -CGUuCGGUucCGUUCGC-UGC------UGC-CGG- -5'
12190 3' -55.4 NC_003309.1 + 5787 0.68 0.559095
Target:  5'- cGCAAGCCuucGAGG-AAGCGgaacgugcGCGG-GGCCa -3'
miRNA:   3'- -CGUUCGG---UUCCgUUCGC--------UGCUgCCGG- -5'
12190 3' -55.4 NC_003309.1 + 6295 0.76 0.2022
Target:  5'- cGUGAGCCGAGGCAauaucGGCGuCGACGaGUUu -3'
miRNA:   3'- -CGUUCGGUUCCGU-----UCGCuGCUGC-CGG- -5'
12190 3' -55.4 NC_003309.1 + 7890 0.73 0.313311
Target:  5'- gGCAAGCCGAucGGCGucGGUGAaCGuCGGCg -3'
miRNA:   3'- -CGUUCGGUU--CCGU--UCGCU-GCuGCCGg -5'
12190 3' -55.4 NC_003309.1 + 9055 0.7 0.464966
Target:  5'- cCAAGCCGcAGcGCGAGCGACaucagGAagcggaGGCCu -3'
miRNA:   3'- cGUUCGGU-UC-CGUUCGCUG-----CUg-----CCGG- -5'
12190 3' -55.4 NC_003309.1 + 10681 0.71 0.425818
Target:  5'- cGCGgcGGCCGucucGCGGGCGAUGAUcGCCg -3'
miRNA:   3'- -CGU--UCGGUuc--CGUUCGCUGCUGcCGG- -5'
12190 3' -55.4 NC_003309.1 + 10862 0.67 0.624744
Target:  5'- cGCGcGCCugcguGGCAAGCG-CGAcaucacgcuCGGCUc -3'
miRNA:   3'- -CGUuCGGuu---CCGUUCGCuGCU---------GCCGG- -5'
12190 3' -55.4 NC_003309.1 + 11570 0.69 0.495518
Target:  5'- cGCAcGCCGucGGC-AGCGuccCGuGCGGCCa -3'
miRNA:   3'- -CGUuCGGUu-CCGuUCGCu--GC-UGCCGG- -5'
12190 3' -55.4 NC_003309.1 + 11982 0.67 0.635762
Target:  5'- cGCGgcAGCCGcGGCGcGCGccGCGuCGGCg -3'
miRNA:   3'- -CGU--UCGGUuCCGUuCGC--UGCuGCCGg -5'
12190 3' -55.4 NC_003309.1 + 12983 0.68 0.602737
Target:  5'- -aAAGCCAuAGGCAuuCGAgcCGACaGCCg -3'
miRNA:   3'- cgUUCGGU-UCCGUucGCU--GCUGcCGG- -5'
12190 3' -55.4 NC_003309.1 + 13639 0.67 0.613733
Target:  5'- -aGAGuCCGcGGGCGcgaAGCGGCGGCGuCCa -3'
miRNA:   3'- cgUUC-GGU-UCCGU---UCGCUGCUGCcGG- -5'
12190 3' -55.4 NC_003309.1 + 15586 0.66 0.668755
Target:  5'- uGCuGGCCAccgaAGuCGAGCGGCGACGagaGCg -3'
miRNA:   3'- -CGuUCGGU----UCcGUUCGCUGCUGC---CGg -5'
12190 3' -55.4 NC_003309.1 + 17497 0.68 0.569938
Target:  5'- gGCAcGCCGAcGCcGGCcucacgcuCGACGGCCg -3'
miRNA:   3'- -CGUuCGGUUcCGuUCGcu------GCUGCCGG- -5'
12190 3' -55.4 NC_003309.1 + 18316 0.68 0.602737
Target:  5'- gGCAuaucGGCCGAcGCGA-CGACGGagcCGGCCc -3'
miRNA:   3'- -CGU----UCGGUUcCGUUcGCUGCU---GCCGG- -5'
12190 3' -55.4 NC_003309.1 + 18847 0.7 0.446131
Target:  5'- -gAAGCgCGcGGCAAGCGucaccgugucaccguUGACGGCCu -3'
miRNA:   3'- cgUUCG-GUuCCGUUCGCu--------------GCUGCCGG- -5'
12190 3' -55.4 NC_003309.1 + 21642 0.7 0.485229
Target:  5'- --cGGUCAAcGUAAGCGACGACGcGaCCg -3'
miRNA:   3'- cguUCGGUUcCGUUCGCUGCUGC-C-GG- -5'
12190 3' -55.4 NC_003309.1 + 22353 0.67 0.612632
Target:  5'- gGCAAGCCGaugugcgccgaucAGGUgcucgacgcAAGCGcCGGCcGCCa -3'
miRNA:   3'- -CGUUCGGU-------------UCCG---------UUCGCuGCUGcCGG- -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.