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
24839 5' -55.5 NC_005284.1 + 20843 0.66 0.75323
Target:  5'- cGACGAGCgGGCGGC--GCUuc-CGCa -3'
miRNA:   3'- cCUGCUUGaCCGCCGgcUGAucaGCG- -5'
24839 5' -55.5 NC_005284.1 + 3380 0.66 0.750169
Target:  5'- uGACGAAUgucgGGCGaaggaaaaccugccGCCGAUgGGUgGCa -3'
miRNA:   3'- cCUGCUUGa---CCGC--------------CGGCUGaUCAgCG- -5'
24839 5' -55.5 NC_005284.1 + 8370 0.66 0.742987
Target:  5'- cGGCGAugaucGC-GGCGG-CGGCguuucAGUCGCa -3'
miRNA:   3'- cCUGCU-----UGaCCGCCgGCUGa----UCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 10912 0.66 0.739892
Target:  5'- cGGACGAagggcgcgaaugauGCgcaGGCccgcauGGCCGGCcucGUCGCc -3'
miRNA:   3'- -CCUGCU--------------UGa--CCG------CCGGCUGau-CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 50522 0.66 0.732635
Target:  5'- gGGuGCGAgucgccgccGCUcuuGCGGCCGAacuGUCGCg -3'
miRNA:   3'- -CC-UGCU---------UGAc--CGCCGGCUgauCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 944 0.66 0.726376
Target:  5'- --cUGAACUGGCGGgCGAUcaccccguucgagcuUGG-CGCa -3'
miRNA:   3'- ccuGCUUGACCGCCgGCUG---------------AUCaGCG- -5'
24839 5' -55.5 NC_005284.1 + 21128 0.66 0.722185
Target:  5'- gGGGCGAcuugguacgaccGCUGGCaGGCUGAaugcaCGCg -3'
miRNA:   3'- -CCUGCU------------UGACCG-CCGGCUgaucaGCG- -5'
24839 5' -55.5 NC_005284.1 + 44226 0.66 0.719033
Target:  5'- --cCGAGCUGGgcaggGGCCGGuaguggaacugggaUUGGUCGCu -3'
miRNA:   3'- ccuGCUUGACCg----CCGGCU--------------GAUCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 17761 0.66 0.711648
Target:  5'- cGGGC--GCUGGCuGCUG-CUGacGUCGCg -3'
miRNA:   3'- -CCUGcuUGACCGcCGGCuGAU--CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 17520 0.66 0.711648
Target:  5'- gGGACaaAGCUGGCaaguCCGACgAGUCGUu -3'
miRNA:   3'- -CCUGc-UUGACCGcc--GGCUGaUCAGCG- -5'
24839 5' -55.5 NC_005284.1 + 16532 0.67 0.701036
Target:  5'- cGugGGGCUGGUgaauGGCCuGC-AGUCGg -3'
miRNA:   3'- cCugCUUGACCG----CCGGcUGaUCAGCg -5'
24839 5' -55.5 NC_005284.1 + 16531 0.67 0.701036
Target:  5'- cGGGCGcGCUGGCGGCaccagGACaa-UCGa -3'
miRNA:   3'- -CCUGCuUGACCGCCGg----CUGaucAGCg -5'
24839 5' -55.5 NC_005284.1 + 15383 0.67 0.690358
Target:  5'- cGACG-ACUGGUGcgaauucgaGCCGggagGCUAcGUCGCg -3'
miRNA:   3'- cCUGCuUGACCGC---------CGGC----UGAU-CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 7961 0.67 0.679626
Target:  5'- aGGGCGAcgACgaaacGGCGGuuCCGAgaAGuUCGCg -3'
miRNA:   3'- -CCUGCU--UGa----CCGCC--GGCUgaUC-AGCG- -5'
24839 5' -55.5 NC_005284.1 + 11842 0.67 0.679626
Target:  5'- --uCGAGCagcGGCucgcguugcaGGCCGACUGG-CGCg -3'
miRNA:   3'- ccuGCUUGa--CCG----------CCGGCUGAUCaGCG- -5'
24839 5' -55.5 NC_005284.1 + 10637 0.67 0.647207
Target:  5'- cGACGAGC-GGCGGCgaagcgcugcgCGAggaaCUGGUgCGCg -3'
miRNA:   3'- cCUGCUUGaCCGCCG-----------GCU----GAUCA-GCG- -5'
24839 5' -55.5 NC_005284.1 + 52399 0.68 0.593031
Target:  5'- cGAaGGACUGGaGG-CGACUAGUCGa -3'
miRNA:   3'- cCUgCUUGACCgCCgGCUGAUCAGCg -5'
24839 5' -55.5 NC_005284.1 + 45273 0.69 0.582256
Target:  5'- cGACGAGCgcucgccgGGC-GCCGACccacgcuGUCGCc -3'
miRNA:   3'- cCUGCUUGa-------CCGcCGGCUGau-----CAGCG- -5'
24839 5' -55.5 NC_005284.1 + 47805 0.69 0.582256
Target:  5'- cGGGCGAGCgcuUGGCGGCgcugCGAUgGGU-GCu -3'
miRNA:   3'- -CCUGCUUG---ACCGCCG----GCUGaUCAgCG- -5'
24839 5' -55.5 NC_005284.1 + 24650 0.69 0.560838
Target:  5'- cGGGCGAA--GGCGGUguuuuaUGAgUGGUCGUg -3'
miRNA:   3'- -CCUGCUUgaCCGCCG------GCUgAUCAGCG- -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.