miRNA display CGI


Results 1 - 20 of 28 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
30420 5' -58.7 NC_006548.1 + 2919 0.66 0.40804
Target:  5'- gCGCCUGCaggcGGCCAagGCGCUgAUCGAcGAGu -3'
miRNA:   3'- -GCGGACGa---CCGGU--UGUGG-UGGCU-CUU- -5'
30420 5' -58.7 NC_006548.1 + 7579 0.66 0.40804
Target:  5'- uCGCCaaGUUGGCCGA-GCagGCCGAGGAg -3'
miRNA:   3'- -GCGGa-CGACCGGUUgUGg-UGGCUCUU- -5'
30420 5' -58.7 NC_006548.1 + 16457 0.66 0.402383
Target:  5'- uGCC-GCUGGCCccaGacaguuuucaccuggGCAUCGCUGAGGAu -3'
miRNA:   3'- gCGGaCGACCGG---U---------------UGUGGUGGCUCUU- -5'
30420 5' -58.7 NC_006548.1 + 29043 0.66 0.38026
Target:  5'- aGCUUGCUgaccaGGCCAGCGCCuuCGGu-- -3'
miRNA:   3'- gCGGACGA-----CCGGUUGUGGugGCUcuu -5'
30420 5' -58.7 NC_006548.1 + 24704 0.66 0.38026
Target:  5'- aGCaCUGUcGGUgAGaACCACCGAGGAg -3'
miRNA:   3'- gCG-GACGaCCGgUUgUGGUGGCUCUU- -5'
30420 5' -58.7 NC_006548.1 + 22327 0.66 0.38026
Target:  5'- gGUCUGCgcggUGGCCAGCGCguCCGuGu- -3'
miRNA:   3'- gCGGACG----ACCGGUUGUGguGGCuCuu -5'
30420 5' -58.7 NC_006548.1 + 985 0.66 0.38026
Target:  5'- uCGuCCUGCaGGCCAGCugCugaCGAGc- -3'
miRNA:   3'- -GC-GGACGaCCGGUUGugGug-GCUCuu -5'
30420 5' -58.7 NC_006548.1 + 35529 0.67 0.353773
Target:  5'- gGCCUGCUGGaCCAggcgucauaucGCAagGCCGcAGAu -3'
miRNA:   3'- gCGGACGACC-GGU-----------UGUggUGGC-UCUu -5'
30420 5' -58.7 NC_006548.1 + 27524 0.67 0.312593
Target:  5'- gGgCUGCUGuucGCCGGCAUCGCCGGu-- -3'
miRNA:   3'- gCgGACGAC---CGGUUGUGGUGGCUcuu -5'
30420 5' -58.7 NC_006548.1 + 22006 0.67 0.312593
Target:  5'- gGCgUGCUgGGCCGucGCACCGCCa---- -3'
miRNA:   3'- gCGgACGA-CCGGU--UGUGGUGGcucuu -5'
30420 5' -58.7 NC_006548.1 + 8691 0.67 0.312593
Target:  5'- gGCCUGgaguccCUGGCCuGGCACCACgGAa-- -3'
miRNA:   3'- gCGGAC------GACCGG-UUGUGGUGgCUcuu -5'
30420 5' -58.7 NC_006548.1 + 28136 0.67 0.312593
Target:  5'- gGCCUGCaGGCCGccaGCCGCCugcuguGAGGc -3'
miRNA:   3'- gCGGACGaCCGGUug-UGGUGG------CUCUu -5'
30420 5' -58.7 NC_006548.1 + 32402 0.68 0.304807
Target:  5'- aGCCUgGCcGGCCAGCcgucGCCGCCGuuGc -3'
miRNA:   3'- gCGGA-CGaCCGGUUG----UGGUGGCucUu -5'
30420 5' -58.7 NC_006548.1 + 20295 0.68 0.304807
Target:  5'- uGCCUuugaUGGCCGgcgGCACggCACCGAGGAa -3'
miRNA:   3'- gCGGAcg--ACCGGU---UGUG--GUGGCUCUU- -5'
30420 5' -58.7 NC_006548.1 + 15209 0.68 0.282344
Target:  5'- gCGCUUGCcGGCCuGCGCguCCGGGu- -3'
miRNA:   3'- -GCGGACGaCCGGuUGUGguGGCUCuu -5'
30420 5' -58.7 NC_006548.1 + 36588 0.69 0.261213
Target:  5'- aCGCC-GC-GGCCGGCACCGCggugcucgcgCGGGGAu -3'
miRNA:   3'- -GCGGaCGaCCGGUUGUGGUG----------GCUCUU- -5'
30420 5' -58.7 NC_006548.1 + 28904 0.69 0.241387
Target:  5'- cCGUCgagGC-GGCCGGCGCCGagaUCGAGAAg -3'
miRNA:   3'- -GCGGa--CGaCCGGUUGUGGU---GGCUCUU- -5'
30420 5' -58.7 NC_006548.1 + 29418 0.7 0.231336
Target:  5'- aGCCgaucGCUGGCCGACGuuGCCGcgcagcagcuggcccAGAAg -3'
miRNA:   3'- gCGGa---CGACCGGUUGUggUGGC---------------UCUU- -5'
30420 5' -58.7 NC_006548.1 + 24840 0.7 0.216922
Target:  5'- -uCCUGCUGGaCGGCAUcaaCACCGAGAc -3'
miRNA:   3'- gcGGACGACCgGUUGUG---GUGGCUCUu -5'
30420 5' -58.7 NC_006548.1 + 2419 0.7 0.199993
Target:  5'- aGCCaUGCUGGCCAGCACguCGCCc---- -3'
miRNA:   3'- gCGG-ACGACCGGUUGUG--GUGGcucuu -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.