miRNA display CGI


Results 1 - 20 of 27 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
16446 5' -56.3 NC_004084.1 + 39315 1.08 0.001093
Target:  5'- gAGGGCGAGGACUACGACAUCGCGUCGu -3'
miRNA:   3'- -UCCCGCUCCUGAUGCUGUAGCGCAGC- -5'
16446 5' -56.3 NC_004084.1 + 11680 0.81 0.095124
Target:  5'- -cGGCGAGGACaGCGACGUCuacacgGCGUCGg -3'
miRNA:   3'- ucCCGCUCCUGaUGCUGUAG------CGCAGC- -5'
16446 5' -56.3 NC_004084.1 + 5353 0.8 0.112355
Target:  5'- gGGcGGCGAGGACUGgGACGaucUCGaCGUCGa -3'
miRNA:   3'- -UC-CCGCUCCUGAUgCUGU---AGC-GCAGC- -5'
16446 5' -56.3 NC_004084.1 + 326 0.71 0.385475
Target:  5'- aGGGGCGcggcgaccAGGACggcaACGACAaCGcCGUCGa -3'
miRNA:   3'- -UCCCGC--------UCCUGa---UGCUGUaGC-GCAGC- -5'
16446 5' -56.3 NC_004084.1 + 52641 0.71 0.385475
Target:  5'- cAGGGUGAGugccucGGCUGCGGCGagacggagaUCGuCGUCGa -3'
miRNA:   3'- -UCCCGCUC------CUGAUGCUGU---------AGC-GCAGC- -5'
16446 5' -56.3 NC_004084.1 + 43663 0.71 0.406907
Target:  5'- cGGGCGGGccuaccgcgccgaguGcCUGCGACGgacgggCGCGUCGa -3'
miRNA:   3'- uCCCGCUC---------------CuGAUGCUGUa-----GCGCAGC- -5'
16446 5' -56.3 NC_004084.1 + 21760 0.7 0.45
Target:  5'- cGGuuccaCGGGGAUcgGCGGCAUCGaCGUCGg -3'
miRNA:   3'- uCCc----GCUCCUGa-UGCUGUAGC-GCAGC- -5'
16446 5' -56.3 NC_004084.1 + 4023 0.7 0.45
Target:  5'- -aGGCGucGACUggaACGGCgAUCGCGUCa -3'
miRNA:   3'- ucCCGCucCUGA---UGCUG-UAGCGCAGc -5'
16446 5' -56.3 NC_004084.1 + 50267 0.7 0.469504
Target:  5'- uGGcGGCGAGGucCU-CGACGUCugccgaccagGCGUCGg -3'
miRNA:   3'- -UC-CCGCUCCu-GAuGCUGUAG----------CGCAGC- -5'
16446 5' -56.3 NC_004084.1 + 51209 0.69 0.540848
Target:  5'- -uGGCGcGGGCUACugGGCGUggUGCGUCGa -3'
miRNA:   3'- ucCCGCuCCUGAUG--CUGUA--GCGCAGC- -5'
16446 5' -56.3 NC_004084.1 + 3640 0.69 0.545045
Target:  5'- gAGGGCGAucaguagcgcuggcgGGGgUugGGCuUgGCGUCGa -3'
miRNA:   3'- -UCCCGCU---------------CCUgAugCUGuAgCGCAGC- -5'
16446 5' -56.3 NC_004084.1 + 36067 0.68 0.55136
Target:  5'- uGGGGauacgaCGAGGACcGCGACGaggUCGcCGUCu -3'
miRNA:   3'- -UCCC------GCUCCUGaUGCUGU---AGC-GCAGc -5'
16446 5' -56.3 NC_004084.1 + 19935 0.68 0.602542
Target:  5'- gAGGGCGAGGAUccguucaacccCGACAcggucUCGCGauccUCGa -3'
miRNA:   3'- -UCCCGCUCCUGau---------GCUGU-----AGCGC----AGC- -5'
16446 5' -56.3 NC_004084.1 + 49776 0.68 0.603618
Target:  5'- -cGGCGAGGACUACaGCcucgguguucucgAUCGCGaagUCGu -3'
miRNA:   3'- ucCCGCUCCUGAUGcUG-------------UAGCGC---AGC- -5'
16446 5' -56.3 NC_004084.1 + 20012 0.68 0.608998
Target:  5'- cGGGGaauccgaucggcgcuCGAGGACgACGA--UCGCGUCu -3'
miRNA:   3'- -UCCC---------------GCUCCUGaUGCUguAGCGCAGc -5'
16446 5' -56.3 NC_004084.1 + 49241 0.67 0.614383
Target:  5'- cAGGGCGAuGACUGaagagauCGACGUCcaCGUCa -3'
miRNA:   3'- -UCCCGCUcCUGAU-------GCUGUAGc-GCAGc -5'
16446 5' -56.3 NC_004084.1 + 16928 0.67 0.626242
Target:  5'- cGGGuGCGGuucggcaucggcGGGCgucGCGACGUCGgGUCu -3'
miRNA:   3'- -UCC-CGCU------------CCUGa--UGCUGUAGCgCAGc -5'
16446 5' -56.3 NC_004084.1 + 856 0.67 0.62732
Target:  5'- uGGGUGuGGAaagagucagucguCGACGUCGcCGUCGg -3'
miRNA:   3'- uCCCGCuCCUgau----------GCUGUAGC-GCAGC- -5'
16446 5' -56.3 NC_004084.1 + 26292 0.67 0.637028
Target:  5'- --cGCGAGGuCUGuCGACcagAUCGUGUCGu -3'
miRNA:   3'- uccCGCUCCuGAU-GCUG---UAGCGCAGC- -5'
16446 5' -56.3 NC_004084.1 + 42683 0.67 0.652119
Target:  5'- cGGcGCGAGGcugccaGCgaucaccgaugcugACGACccuGUCGCGUCGg -3'
miRNA:   3'- uCC-CGCUCC------UGa-------------UGCUG---UAGCGCAGC- -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.