miRNA display CGI


Results 1 - 20 of 49 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
22617 3' -58.3 NC_005091.1 + 32964 0.66 0.611866
Target:  5'- uCAUCCGCGagaGCGGcGUUGaGUUgcGCCCg -3'
miRNA:   3'- -GUAGGCGCgugCGCU-CAGC-CGA--UGGG- -5'
22617 3' -58.3 NC_005091.1 + 6079 0.66 0.611866
Target:  5'- gCGUCCGacuguCGCGC-CGcuUCGGCUcgucGCCCg -3'
miRNA:   3'- -GUAGGC-----GCGUGcGCucAGCCGA----UGGG- -5'
22617 3' -58.3 NC_005091.1 + 13380 0.66 0.611866
Target:  5'- gAUCgGUgGUACGUGGGUCGGUacuUCCg -3'
miRNA:   3'- gUAGgCG-CGUGCGCUCAGCCGau-GGG- -5'
22617 3' -58.3 NC_005091.1 + 26060 0.66 0.600156
Target:  5'- --gCCGCGCACGCGcugauaccacgacAGcgauucgCGGUUcCCCg -3'
miRNA:   3'- guaGGCGCGUGCGC-------------UCa------GCCGAuGGG- -5'
22617 3' -58.3 NC_005091.1 + 28181 0.66 0.590598
Target:  5'- aCAgcgCCGaCGCcCGCGAuauucGUCGGCgagACgCCg -3'
miRNA:   3'- -GUa--GGC-GCGuGCGCU-----CAGCCGa--UG-GG- -5'
22617 3' -58.3 NC_005091.1 + 5070 0.66 0.590598
Target:  5'- cCGUaCCG-GCcuCG-GGGUUGGCUGCCCc -3'
miRNA:   3'- -GUA-GGCgCGu-GCgCUCAGCCGAUGGG- -5'
22617 3' -58.3 NC_005091.1 + 26439 0.66 0.590598
Target:  5'- --aCCGCGCGCGgGccgccggGGCUGCCa -3'
miRNA:   3'- guaGGCGCGUGCgCucag---CCGAUGGg -5'
22617 3' -58.3 NC_005091.1 + 32198 0.66 0.590598
Target:  5'- -cUCCaGCaGCAaccCG-GAGUCGGCgcggACCCg -3'
miRNA:   3'- guAGG-CG-CGU---GCgCUCAGCCGa---UGGG- -5'
22617 3' -58.3 NC_005091.1 + 56791 0.66 0.58001
Target:  5'- gAUCgCGgGCaACGCGAuGgcgUGGCUGCaCCg -3'
miRNA:   3'- gUAG-GCgCG-UGCGCU-Ca--GCCGAUG-GG- -5'
22617 3' -58.3 NC_005091.1 + 20363 0.66 0.58001
Target:  5'- --aUCGCGCACGg----CGGCUACUCg -3'
miRNA:   3'- guaGGCGCGUGCgcucaGCCGAUGGG- -5'
22617 3' -58.3 NC_005091.1 + 987 0.66 0.569462
Target:  5'- cCGUCC-CGCaggccugcucgACGCGGG-CGcGCUGCUCg -3'
miRNA:   3'- -GUAGGcGCG-----------UGCGCUCaGC-CGAUGGG- -5'
22617 3' -58.3 NC_005091.1 + 36703 0.66 0.569462
Target:  5'- gGUCCGCuucgACGCGAGgucgaaCGGCUcGCCg -3'
miRNA:   3'- gUAGGCGcg--UGCGCUCa-----GCCGA-UGGg -5'
22617 3' -58.3 NC_005091.1 + 49972 0.66 0.565256
Target:  5'- --gCCG-GCACGCGuugcgcucgauucGUCGGCUAUCa -3'
miRNA:   3'- guaGGCgCGUGCGCu------------CAGCCGAUGGg -5'
22617 3' -58.3 NC_005091.1 + 20097 0.66 0.563156
Target:  5'- gGUCUGCGCcuCGCauacacgaaaGGCUGCCCg -3'
miRNA:   3'- gUAGGCGCGu-GCGcucag-----CCGAUGGG- -5'
22617 3' -58.3 NC_005091.1 + 6606 0.66 0.558962
Target:  5'- --aUCGCuCGCGCGGcGUCcgGGCUGCCg -3'
miRNA:   3'- guaGGCGcGUGCGCU-CAG--CCGAUGGg -5'
22617 3' -58.3 NC_005091.1 + 44044 0.67 0.552688
Target:  5'- -uUCCGCGCcaaggaggcacgaugGaCGUGGG-CGGCUucgaACCCg -3'
miRNA:   3'- guAGGCGCG---------------U-GCGCUCaGCCGA----UGGG- -5'
22617 3' -58.3 NC_005091.1 + 7397 0.67 0.548517
Target:  5'- gGUCUG-GUGCGCcucggcuuGGUCGaGCUGCCCg -3'
miRNA:   3'- gUAGGCgCGUGCGc-------UCAGC-CGAUGGG- -5'
22617 3' -58.3 NC_005091.1 + 50809 0.67 0.548517
Target:  5'- --gCCGuCGUGCGCG---CGGCUAUCCg -3'
miRNA:   3'- guaGGC-GCGUGCGCucaGCCGAUGGG- -5'
22617 3' -58.3 NC_005091.1 + 14476 0.67 0.548517
Target:  5'- ---aCGCaGUACGCGuuccucGUCGGCUGUCCg -3'
miRNA:   3'- guagGCG-CGUGCGCu-----CAGCCGAUGGG- -5'
22617 3' -58.3 NC_005091.1 + 52448 0.67 0.548517
Target:  5'- aAUCaggGCGCGC-CGGG-CGGCgACCCc -3'
miRNA:   3'- gUAGg--CGCGUGcGCUCaGCCGaUGGG- -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.