miRNA display CGI


Results 1 - 20 of 25 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
16267 5' -54.5 NC_004084.1 + 15720 0.66 0.828283
Target:  5'- aGGGuCGucaGCAUCGGu-GAUCGcUGGCa -3'
miRNA:   3'- gCCCuGC---CGUAGCCuuCUAGC-ACUGg -5'
16267 5' -54.5 NC_004084.1 + 29027 0.66 0.820179
Target:  5'- uCGaGGGCGGCAUCaccuuccaGGAGGGacgcgggaucccgggCGUcGACCa -3'
miRNA:   3'- -GC-CCUGCCGUAG--------CCUUCUa--------------GCA-CUGG- -5'
16267 5' -54.5 NC_004084.1 + 56616 0.66 0.810065
Target:  5'- cCGGu-CGGCGaguUCGccGGAUCGUGGCUc -3'
miRNA:   3'- -GCCcuGCCGU---AGCcuUCUAGCACUGG- -5'
16267 5' -54.5 NC_004084.1 + 55962 0.66 0.80068
Target:  5'- cCGGGuacgACGGCGacgCGGAGGggC-UGAUCg -3'
miRNA:   3'- -GCCC----UGCCGUa--GCCUUCuaGcACUGG- -5'
16267 5' -54.5 NC_004084.1 + 29583 0.66 0.797831
Target:  5'- cCGGGugGGCGUCGuucgcgcgcaguucGAUgGUGAgCg -3'
miRNA:   3'- -GCCCugCCGUAGCcuu-----------CUAgCACUgG- -5'
16267 5' -54.5 NC_004084.1 + 49079 0.66 0.791124
Target:  5'- aCGuGcGACGGU--CGGGAGAggucucgCGUGACUg -3'
miRNA:   3'- -GC-C-CUGCCGuaGCCUUCUa------GCACUGG- -5'
16267 5' -54.5 NC_004084.1 + 7548 0.66 0.781407
Target:  5'- -aGGACGGCAUCGaGAAGAaC---GCCg -3'
miRNA:   3'- gcCCUGCCGUAGC-CUUCUaGcacUGG- -5'
16267 5' -54.5 NC_004084.1 + 53276 0.66 0.781407
Target:  5'- aGGGACGaCGUCGGucgccacgccGAGGUUGUaucgacggucGGCCa -3'
miRNA:   3'- gCCCUGCcGUAGCC----------UUCUAGCA----------CUGG- -5'
16267 5' -54.5 NC_004084.1 + 37866 0.67 0.77154
Target:  5'- aCGGGAUGGCcgggCGGGu-GUCG-GAUCg -3'
miRNA:   3'- -GCCCUGCCGua--GCCUucUAGCaCUGG- -5'
16267 5' -54.5 NC_004084.1 + 21767 0.67 0.77154
Target:  5'- aCGGGgaucgGCGGCAUCGac--GUCGgGGCCg -3'
miRNA:   3'- -GCCC-----UGCCGUAGCcuucUAGCaCUGG- -5'
16267 5' -54.5 NC_004084.1 + 45676 0.67 0.77154
Target:  5'- aCGGu-CGGCGUCGacGAGAUCGUGcGCg -3'
miRNA:   3'- -GCCcuGCCGUAGCc-UUCUAGCAC-UGg -5'
16267 5' -54.5 NC_004084.1 + 53247 0.67 0.761534
Target:  5'- gCGGG-CGGuCGUCGacggcgacGAGAUCG-GGCCg -3'
miRNA:   3'- -GCCCuGCC-GUAGCc-------UUCUAGCaCUGG- -5'
16267 5' -54.5 NC_004084.1 + 13477 0.67 0.749357
Target:  5'- uCGGGcuaaccaacgaGGUGUCGGAAGccAUCGgacugGACCg -3'
miRNA:   3'- -GCCCug---------CCGUAGCCUUC--UAGCa----CUGG- -5'
16267 5' -54.5 NC_004084.1 + 39256 0.67 0.741146
Target:  5'- -aGGGCGGCG--GGAAGAUgGUGGUCg -3'
miRNA:   3'- gcCCUGCCGUagCCUUCUAgCACUGG- -5'
16267 5' -54.5 NC_004084.1 + 46572 0.67 0.741146
Target:  5'- uCGGcauCGGCAUCGcGgcGAUCGUcGugCu -3'
miRNA:   3'- -GCCcu-GCCGUAGC-CuuCUAGCA-CugG- -5'
16267 5' -54.5 NC_004084.1 + 9853 0.67 0.741146
Target:  5'- gCGaGGGCGGCucacgCGGGAGcccggcggaagaGUCGgcGACCg -3'
miRNA:   3'- -GC-CCUGCCGua---GCCUUC------------UAGCa-CUGG- -5'
16267 5' -54.5 NC_004084.1 + 16701 0.68 0.699176
Target:  5'- cCGGGACG--AUCuGAAGGUCGaaGACCg -3'
miRNA:   3'- -GCCCUGCcgUAGcCUUCUAGCa-CUGG- -5'
16267 5' -54.5 NC_004084.1 + 16927 0.68 0.688498
Target:  5'- cCGGGugcgguuCGGCAUCGGcGGGcgUCGcGACg -3'
miRNA:   3'- -GCCCu------GCCGUAGCCuUCU--AGCaCUGg -5'
16267 5' -54.5 NC_004084.1 + 44823 0.69 0.656193
Target:  5'- uCGGuGACGGUAUCGaGcugaccGAGGUCG-GAUCg -3'
miRNA:   3'- -GCC-CUGCCGUAGC-C------UUCUAGCaCUGG- -5'
16267 5' -54.5 NC_004084.1 + 33006 0.69 0.651865
Target:  5'- uCGGGAUGcGgAUCgGGGAGAUCGcccacaugaagcgGACCu -3'
miRNA:   3'- -GCCCUGC-CgUAG-CCUUCUAGCa------------CUGG- -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.