miRNA display CGI


Results 1 - 13 of 13 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
20705 3' -50.3 NC_004688.1 + 75166 0.66 0.987648
Target:  5'- gUGCCGuuGCcGUGCgcgaacGugGGGGUUC-CCAc -3'
miRNA:   3'- -ACGGU--UGuUACG------UugCCCUAAGaGGU- -5'
20705 3' -50.3 NC_004688.1 + 66921 0.66 0.984061
Target:  5'- cGgCAugAcgGCGGCGGGGUaguugaUCCAc -3'
miRNA:   3'- aCgGUugUuaCGUUGCCCUAag----AGGU- -5'
20705 3' -50.3 NC_004688.1 + 32930 0.66 0.982211
Target:  5'- gGCCGg----GCGGCGGGAUgguauucacgccuugCUCCAg -3'
miRNA:   3'- aCGGUuguuaCGUUGCCCUAa--------------GAGGU- -5'
20705 3' -50.3 NC_004688.1 + 20085 0.66 0.979736
Target:  5'- aGCCGACGAUGCGGaucuucuuCGGG--UCguagCCGa -3'
miRNA:   3'- aCGGUUGUUACGUU--------GCCCuaAGa---GGU- -5'
20705 3' -50.3 NC_004688.1 + 21062 0.67 0.961572
Target:  5'- cGCCAGCGAUGUcggggccgcgccAGcCGGGAggCUUCu -3'
miRNA:   3'- aCGGUUGUUACG------------UU-GCCCUaaGAGGu -5'
20705 3' -50.3 NC_004688.1 + 97151 0.68 0.957702
Target:  5'- cGCCAGCAGUuCAGCGuGcGAgcaUCUCCc -3'
miRNA:   3'- aCGGUUGUUAcGUUGC-C-CUa--AGAGGu -5'
20705 3' -50.3 NC_004688.1 + 52876 0.68 0.944524
Target:  5'- cGUUAACGAguaguacggGCGGCGGGGg-CUCCAc -3'
miRNA:   3'- aCGGUUGUUa--------CGUUGCCCUaaGAGGU- -5'
20705 3' -50.3 NC_004688.1 + 28784 0.7 0.906912
Target:  5'- cUGCaauCGGCAAUGCcAUGGGAUacagcaccggauaacUCUCCGg -3'
miRNA:   3'- -ACG---GUUGUUACGuUGCCCUA---------------AGAGGU- -5'
20705 3' -50.3 NC_004688.1 + 1701 0.7 0.882915
Target:  5'- uUGCCAGCGAgGCAGCGGaGUUCg--- -3'
miRNA:   3'- -ACGGUUGUUaCGUUGCCcUAAGaggu -5'
20705 3' -50.3 NC_004688.1 + 35258 0.71 0.867401
Target:  5'- cGCCgAACGAccccUGCGACGGGGUgUCggCCGc -3'
miRNA:   3'- aCGG-UUGUU----ACGUUGCCCUA-AGa-GGU- -5'
20705 3' -50.3 NC_004688.1 + 104034 0.72 0.81526
Target:  5'- cGCCGugGGacaGCAGCGGG-UUUUCCGg -3'
miRNA:   3'- aCGGUugUUa--CGUUGCCCuAAGAGGU- -5'
20705 3' -50.3 NC_004688.1 + 34839 0.72 0.805843
Target:  5'- gGCCAAUAuUGUAAuuCGGG-UUCUCCGu -3'
miRNA:   3'- aCGGUUGUuACGUU--GCCCuAAGAGGU- -5'
20705 3' -50.3 NC_004688.1 + 48617 0.73 0.776546
Target:  5'- cGCCAugAaaguugaguacAUGCGugGCGGGAUUC-CCAc -3'
miRNA:   3'- aCGGUugU-----------UACGU--UGCCCUAAGaGGU- -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.