miRNA display CGI


Results 1 - 20 of 40 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
22596 3' -52.8 NC_005091.1 + 10474 0.71 0.613505
Target:  5'- aCGUCuACCUcacauggGAAGAgGCGGCCGCgcugCCg -3'
miRNA:   3'- -GUAGcUGGA-------CUUCU-UGCCGGCGaa--GG- -5'
22596 3' -52.8 NC_005091.1 + 11868 0.66 0.876139
Target:  5'- --gCGGCaUGAAcGGAUGGUCGCUgaaaUCCg -3'
miRNA:   3'- guaGCUGgACUU-CUUGCCGGCGA----AGG- -5'
22596 3' -52.8 NC_005091.1 + 50616 0.66 0.868211
Target:  5'- aCGUCG-CCUGuguuGAcguacgcgGCGGCCGgUUCg -3'
miRNA:   3'- -GUAGCuGGACuu--CU--------UGCCGGCgAAGg -5'
22596 3' -52.8 NC_005091.1 + 10425 0.66 0.868211
Target:  5'- --cUGACCgu--GAGCGGCCGCa--- -3'
miRNA:   3'- guaGCUGGacuuCUUGCCGGCGaagg -5'
22596 3' -52.8 NC_005091.1 + 14271 0.66 0.860033
Target:  5'- cCGUUGACCgGAGGAcugacguucacGCGuGCcCGCgUUCCc -3'
miRNA:   3'- -GUAGCUGGaCUUCU-----------UGC-CG-GCG-AAGG- -5'
22596 3' -52.8 NC_005091.1 + 4171 0.67 0.815686
Target:  5'- gGUCGGCUgGGAG-AUGGCCGagcggaugUCCa -3'
miRNA:   3'- gUAGCUGGaCUUCuUGCCGGCga------AGG- -5'
22596 3' -52.8 NC_005091.1 + 10871 0.67 0.812858
Target:  5'- gAUCGACCUcGGGAaacagcucgacccgGCGGCCGg--CCu -3'
miRNA:   3'- gUAGCUGGAcUUCU--------------UGCCGGCgaaGG- -5'
22596 3' -52.8 NC_005091.1 + 28076 0.67 0.80619
Target:  5'- gCAUcCGGCUUGAcuuGGaAGCGGCCGUUcUUCa -3'
miRNA:   3'- -GUA-GCUGGACU---UC-UUGCCGGCGA-AGG- -5'
22596 3' -52.8 NC_005091.1 + 3483 0.67 0.796509
Target:  5'- aCAUCGACCaGAuGGucgucucguuCGGCuCGCUUCa -3'
miRNA:   3'- -GUAGCUGGaCUuCUu---------GCCG-GCGAAGg -5'
22596 3' -52.8 NC_005091.1 + 57084 0.67 0.784661
Target:  5'- -cUCGACCggcaaGAAGAcaacauugcggccgaGCGGCUguauaucgaacgccaGCUUCCg -3'
miRNA:   3'- guAGCUGGa----CUUCU---------------UGCCGG---------------CGAAGG- -5'
22596 3' -52.8 NC_005091.1 + 34234 0.68 0.776633
Target:  5'- --aUGACCUGAc-GACGGCCccacgGCUUCg -3'
miRNA:   3'- guaGCUGGACUucUUGCCGG-----CGAAGg -5'
22596 3' -52.8 NC_005091.1 + 32611 0.68 0.766462
Target:  5'- aCGUCGGCCUGAAu-GCuGGCCuucaCUUCUu -3'
miRNA:   3'- -GUAGCUGGACUUcuUG-CCGGc---GAAGG- -5'
22596 3' -52.8 NC_005091.1 + 27614 0.68 0.766462
Target:  5'- aCGUCGGuCgUGu-GGGCGGaauaCGCUUCCa -3'
miRNA:   3'- -GUAGCU-GgACuuCUUGCCg---GCGAAGG- -5'
22596 3' -52.8 NC_005091.1 + 28344 0.68 0.75615
Target:  5'- uGUCGACCUGAAGcgUcGUCGUcacgUCCu -3'
miRNA:   3'- gUAGCUGGACUUCuuGcCGGCGa---AGG- -5'
22596 3' -52.8 NC_005091.1 + 1930 0.68 0.753031
Target:  5'- -cUCGGCgaGAAGAucgaacgcgacgauGCGGCCGCcgugUCg -3'
miRNA:   3'- guAGCUGgaCUUCU--------------UGCCGGCGa---AGg -5'
22596 3' -52.8 NC_005091.1 + 7075 0.68 0.735153
Target:  5'- --gCGAcuCCUGAAGGgcaucgagACGGCCGCcgcugCCg -3'
miRNA:   3'- guaGCU--GGACUUCU--------UGCCGGCGaa---GG- -5'
22596 3' -52.8 NC_005091.1 + 26872 0.69 0.72449
Target:  5'- gAUCGGa--GAGGGagGCGGCCGCUUUg -3'
miRNA:   3'- gUAGCUggaCUUCU--UGCCGGCGAAGg -5'
22596 3' -52.8 NC_005091.1 + 13771 0.69 0.713735
Target:  5'- --aCGACUUGAaucgcagucaccAGAuUGGCCGCUgcugCCg -3'
miRNA:   3'- guaGCUGGACU------------UCUuGCCGGCGAa---GG- -5'
22596 3' -52.8 NC_005091.1 + 3323 0.69 0.702897
Target:  5'- --gCGAUUgucGAAGGcACGGuuGCUUCCg -3'
miRNA:   3'- guaGCUGGa--CUUCU-UGCCggCGAAGG- -5'
22596 3' -52.8 NC_005091.1 + 21630 0.74 0.444856
Target:  5'- gAUCGACC-GgcGGGCGGCCGUUcgUUCg -3'
miRNA:   3'- gUAGCUGGaCuuCUUGCCGGCGA--AGG- -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.