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
23388 5' -48.4 NC_005259.1 + 68692 0.66 0.990632
Target:  5'- cUCGAuGAUCGagGCGGgcaGCGcGUcgGUGCCCg -3'
miRNA:   3'- -GGUU-CUAGU--UGUCaa-CGC-CA--UACGGG- -5'
23388 5' -48.4 NC_005259.1 + 64337 0.66 0.985858
Target:  5'- gCCucGGAcugCcACucGUUGCGGgcgGUGCCCa -3'
miRNA:   3'- -GGu-UCUa--GuUGu-CAACGCCa--UACGGG- -5'
23388 5' -48.4 NC_005259.1 + 19963 0.66 0.985858
Target:  5'- aCGgcGGcUCGGCGG-UGUGG-GUGCCCg -3'
miRNA:   3'- gGU--UCuAGUUGUCaACGCCaUACGGG- -5'
23388 5' -48.4 NC_005259.1 + 842 0.66 0.985858
Target:  5'- aCCAAGGUCGcugcGCAGgccgagUGCGaGcGUGCgCu -3'
miRNA:   3'- -GGUUCUAGU----UGUCa-----ACGC-CaUACGgG- -5'
23388 5' -48.4 NC_005259.1 + 65265 0.66 0.985858
Target:  5'- gCCAAGggCGAgGGUgUGUGGgugcUGCCg -3'
miRNA:   3'- -GGUUCuaGUUgUCA-ACGCCau--ACGGg -5'
23388 5' -48.4 NC_005259.1 + 8533 0.67 0.981765
Target:  5'- gCCAAucggcGAUgAGCucg-GCGGUGUaGCCCa -3'
miRNA:   3'- -GGUU-----CUAgUUGucaaCGCCAUA-CGGG- -5'
23388 5' -48.4 NC_005259.1 + 2060 0.67 0.979165
Target:  5'- aCCGAGAcaCGGCGGUUcaauuggGCGGgccUGCUCg -3'
miRNA:   3'- -GGUUCUa-GUUGUCAA-------CGCCau-ACGGG- -5'
23388 5' -48.4 NC_005259.1 + 68788 0.67 0.974042
Target:  5'- --cAGGUCGuacGCcGggGCGGUgucgGUGCCCg -3'
miRNA:   3'- gguUCUAGU---UGuCaaCGCCA----UACGGG- -5'
23388 5' -48.4 NC_005259.1 + 8206 0.67 0.971005
Target:  5'- cCCGAugucGggCAACAGcgagcgUGCGGUgGUGCCg -3'
miRNA:   3'- -GGUU----CuaGUUGUCa-----ACGCCA-UACGGg -5'
23388 5' -48.4 NC_005259.1 + 27308 0.68 0.964181
Target:  5'- aCAcGGUCAGCAucGUUGCGcGgguUGCCUc -3'
miRNA:   3'- gGUuCUAGUUGU--CAACGC-Cau-ACGGG- -5'
23388 5' -48.4 NC_005259.1 + 55945 0.69 0.951958
Target:  5'- aCCGAGGUUGACccgcugUGCGGacauccccucgAUGCCCu -3'
miRNA:   3'- -GGUUCUAGUUGuca---ACGCCa----------UACGGG- -5'
23388 5' -48.4 NC_005259.1 + 984 0.69 0.951508
Target:  5'- aCGAGAcacCGGCAGccgUGUGGUguacgcgauacguAUGCCCu -3'
miRNA:   3'- gGUUCUa--GUUGUCa--ACGCCA-------------UACGGG- -5'
23388 5' -48.4 NC_005259.1 + 14097 0.69 0.942414
Target:  5'- gCGAGGUCGAgGG-UGCGGaaacgcAUGCCa -3'
miRNA:   3'- gGUUCUAGUUgUCaACGCCa-----UACGGg -5'
23388 5' -48.4 NC_005259.1 + 14064 0.69 0.942414
Target:  5'- aCGAGAcCAGCAcg-GCGGUG-GCCUa -3'
miRNA:   3'- gGUUCUaGUUGUcaaCGCCAUaCGGG- -5'
23388 5' -48.4 NC_005259.1 + 29889 0.69 0.941907
Target:  5'- gUCGAGGUCGGCaagcacaAGggGUGGc-UGCCCg -3'
miRNA:   3'- -GGUUCUAGUUG-------UCaaCGCCauACGGG- -5'
23388 5' -48.4 NC_005259.1 + 9641 0.69 0.93721
Target:  5'- cCCucGAUCAcCucGUcGuCGGUAUGCCCg -3'
miRNA:   3'- -GGuuCUAGUuGu-CAaC-GCCAUACGGG- -5'
23388 5' -48.4 NC_005259.1 + 49447 0.69 0.93721
Target:  5'- gCCuuGGUCGGCAGc--CGG-AUGCCCa -3'
miRNA:   3'- -GGuuCUAGUUGUCaacGCCaUACGGG- -5'
23388 5' -48.4 NC_005259.1 + 13202 0.7 0.91348
Target:  5'- aCCAAGcaCAGCGGggccaGCGGUggGCCUc -3'
miRNA:   3'- -GGUUCuaGUUGUCaa---CGCCAuaCGGG- -5'
23388 5' -48.4 NC_005259.1 + 9770 0.7 0.899871
Target:  5'- aCGAGAccuggcUCGACuucUGCccGGUGUGCCCg -3'
miRNA:   3'- gGUUCU------AGUUGucaACG--CCAUACGGG- -5'
23388 5' -48.4 NC_005259.1 + 18599 0.71 0.885127
Target:  5'- cCCGAuGUCuacGACAGUccgcacaGCGGUGUGCCg -3'
miRNA:   3'- -GGUUcUAG---UUGUCAa------CGCCAUACGGg -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.