miRNA display CGI


Results 21 - 38 of 38 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
20708 3' -55.8 NC_004688.1 + 104042 0.68 0.694496
Target:  5'- gACAGCAGCGGguuuuCCGGgUcgacgAGCGCGUCg -3'
miRNA:   3'- -UGUCGUUGCUgu---GGCCgG-----UCGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 12689 0.69 0.684042
Target:  5'- aACGGC-ACGAU-CCGGgCAGCACGc- -3'
miRNA:   3'- -UGUCGuUGCUGuGGCCgGUCGUGUag -5'
20708 3' -55.8 NC_004688.1 + 92411 0.69 0.684042
Target:  5'- gGCGGaAGCGGCaACCGGgaaCCGGCACcUCg -3'
miRNA:   3'- -UGUCgUUGCUG-UGGCC---GGUCGUGuAG- -5'
20708 3' -55.8 NC_004688.1 + 54746 0.69 0.684042
Target:  5'- uACGGUuuAUGGCGCUGGCCGGUAUu-- -3'
miRNA:   3'- -UGUCGu-UGCUGUGGCCGGUCGUGuag -5'
20708 3' -55.8 NC_004688.1 + 99737 0.69 0.663005
Target:  5'- cGCuGCGagGCGACcUCGGUCAGCACGc- -3'
miRNA:   3'- -UGuCGU--UGCUGuGGCCGGUCGUGUag -5'
20708 3' -55.8 NC_004688.1 + 88642 0.69 0.663005
Target:  5'- -uGGCua-GAC-UUGGCCAGCGCAUCc -3'
miRNA:   3'- ugUCGuugCUGuGGCCGGUCGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 100490 0.69 0.641861
Target:  5'- gGCGGCGcaGGCGCUccuuGGCCGGCuCGUCg -3'
miRNA:   3'- -UGUCGUugCUGUGG----CCGGUCGuGUAG- -5'
20708 3' -55.8 NC_004688.1 + 13482 0.7 0.620684
Target:  5'- -aAGU-ACGACGCCGGCacCAGCGCGc- -3'
miRNA:   3'- ugUCGuUGCUGUGGCCG--GUCGUGUag -5'
20708 3' -55.8 NC_004688.1 + 29429 0.7 0.610106
Target:  5'- -gGGCAcACGA-GCCGagcgaGCCAGCGCAUCa -3'
miRNA:   3'- ugUCGU-UGCUgUGGC-----CGGUCGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 25596 0.7 0.589009
Target:  5'- cGCAGCc-UGAUGgCGGCCAGCGCcgCc -3'
miRNA:   3'- -UGUCGuuGCUGUgGCCGGUCGUGuaG- -5'
20708 3' -55.8 NC_004688.1 + 14799 0.7 0.578507
Target:  5'- cCAGuCGAUGugACCGGCgCgGGCGCGUUg -3'
miRNA:   3'- uGUC-GUUGCugUGGCCG-G-UCGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 105504 0.71 0.557634
Target:  5'- aAUGGUGugGGCACCGGUCcGCGgGUCc -3'
miRNA:   3'- -UGUCGUugCUGUGGCCGGuCGUgUAG- -5'
20708 3' -55.8 NC_004688.1 + 93246 0.72 0.496535
Target:  5'- gGCGGCAacaucgucggcGCGAUcgGCgCGGCCGGCGC-UCa -3'
miRNA:   3'- -UGUCGU-----------UGCUG--UG-GCCGGUCGUGuAG- -5'
20708 3' -55.8 NC_004688.1 + 57233 0.72 0.496535
Target:  5'- cCGGCAuugACGuCGCCGGCCuGCuuGUCg -3'
miRNA:   3'- uGUCGU---UGCuGUGGCCGGuCGugUAG- -5'
20708 3' -55.8 NC_004688.1 + 95650 0.74 0.411169
Target:  5'- -uGGuCAACGGCGCCGcGCCgcGGCACAUg -3'
miRNA:   3'- ugUC-GUUGCUGUGGC-CGG--UCGUGUAg -5'
20708 3' -55.8 NC_004688.1 + 55073 0.76 0.298087
Target:  5'- aGCGGCGcuCGACACCcggGGUUGGCGCAUCg -3'
miRNA:   3'- -UGUCGUu-GCUGUGG---CCGGUCGUGUAG- -5'
20708 3' -55.8 NC_004688.1 + 75515 0.77 0.25125
Target:  5'- cCGGCuccgGCGGCACCGGCCAGuuUugGUCa -3'
miRNA:   3'- uGUCGu---UGCUGUGGCCGGUC--GugUAG- -5'
20708 3' -55.8 NC_004688.1 + 64670 0.79 0.205333
Target:  5'- uGCAGCAGCccCACCGGCCAGC-UGUCc -3'
miRNA:   3'- -UGUCGUUGcuGUGGCCGGUCGuGUAG- -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.