miRNA display CGI


Results 1 - 20 of 30 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
10945 3' -55.5 NC_002794.1 + 90991 0.75 0.520175
Target:  5'- uACCgGGCCGAggCGGAgCGGgcCGACa -3'
miRNA:   3'- -UGGaCCGGCUaaGCCUgGUCaaGCUG- -5'
10945 3' -55.5 NC_002794.1 + 130321 0.72 0.669817
Target:  5'- uCCUGGCCGAgacggCGGACgaAGgcggCGACg -3'
miRNA:   3'- uGGACCGGCUaa---GCCUGg-UCaa--GCUG- -5'
10945 3' -55.5 NC_002794.1 + 77400 0.72 0.679837
Target:  5'- uACCUGGCCG--UCGGcgagauccugcACCAGacCGACa -3'
miRNA:   3'- -UGGACCGGCuaAGCC-----------UGGUCaaGCUG- -5'
10945 3' -55.5 NC_002794.1 + 181303 0.72 0.689819
Target:  5'- cCCaGGCCGAgcaGGAUCAGcgCGACg -3'
miRNA:   3'- uGGaCCGGCUaagCCUGGUCaaGCUG- -5'
10945 3' -55.5 NC_002794.1 + 32607 0.71 0.755067
Target:  5'- gGCCggGGCCGGggaUCGGGCCcgccgacgaagaggGGggCGACg -3'
miRNA:   3'- -UGGa-CCGGCUa--AGCCUGG--------------UCaaGCUG- -5'
10945 3' -55.5 NC_002794.1 + 44992 0.71 0.767261
Target:  5'- cGCCuUGGCCGug-CGGACCuGUUgcaGACu -3'
miRNA:   3'- -UGG-ACCGGCuaaGCCUGGuCAAg--CUG- -5'
10945 3' -55.5 NC_002794.1 + 122169 0.7 0.776508
Target:  5'- uACCUGGCCGAgcaCGGcgcgcGCguGUgCGACg -3'
miRNA:   3'- -UGGACCGGCUaa-GCC-----UGguCAaGCUG- -5'
10945 3' -55.5 NC_002794.1 + 121005 0.7 0.82069
Target:  5'- gGCCaUGGCCGAgggUCGGccucccaagagGCCGGagagCGGCg -3'
miRNA:   3'- -UGG-ACCGGCUa--AGCC-----------UGGUCaa--GCUG- -5'
10945 3' -55.5 NC_002794.1 + 121482 0.69 0.837253
Target:  5'- gACC--GCCGGUUCGGacgcggccuccGCCGGggCGACg -3'
miRNA:   3'- -UGGacCGGCUAAGCC-----------UGGUCaaGCUG- -5'
10945 3' -55.5 NC_002794.1 + 149963 0.69 0.853091
Target:  5'- gACgUGGCCGAccugccgCGGACCGG--CGGCc -3'
miRNA:   3'- -UGgACCGGCUaa-----GCCUGGUCaaGCUG- -5'
10945 3' -55.5 NC_002794.1 + 126071 0.69 0.853091
Target:  5'- cGCCUGGCC----UGGACCGGccugCGGCc -3'
miRNA:   3'- -UGGACCGGcuaaGCCUGGUCaa--GCUG- -5'
10945 3' -55.5 NC_002794.1 + 107525 0.69 0.860722
Target:  5'- cGCCgacGGCCGGcgCGGcGCCGGcggCGACg -3'
miRNA:   3'- -UGGa--CCGGCUaaGCC-UGGUCaa-GCUG- -5'
10945 3' -55.5 NC_002794.1 + 129171 0.68 0.882387
Target:  5'- gGCCgaUGGCCGuucgaUCGGccuCCGGgUCGACg -3'
miRNA:   3'- -UGG--ACCGGCua---AGCCu--GGUCaAGCUG- -5'
10945 3' -55.5 NC_002794.1 + 189326 0.68 0.884449
Target:  5'- -gCUGGUCGGggggcagcagcuccaGGaACCAGUUCGACg -3'
miRNA:   3'- ugGACCGGCUaag------------CC-UGGUCAAGCUG- -5'
10945 3' -55.5 NC_002794.1 + 80732 0.68 0.901488
Target:  5'- gACCUGGCCcuccgcgacggGGUccgggccacgcgcUCGGACCucUUCGACc -3'
miRNA:   3'- -UGGACCGG-----------CUA-------------AGCCUGGucAAGCUG- -5'
10945 3' -55.5 NC_002794.1 + 126031 0.68 0.902113
Target:  5'- gAUCUGGCCGAacUUCGGcCUGGcggUCGGa -3'
miRNA:   3'- -UGGACCGGCU--AAGCCuGGUCa--AGCUg -5'
10945 3' -55.5 NC_002794.1 + 91917 0.67 0.914136
Target:  5'- cACCUGGCCuGGgccugCGcGACCAGUcCGcACc -3'
miRNA:   3'- -UGGACCGG-CUaa---GC-CUGGUCAaGC-UG- -5'
10945 3' -55.5 NC_002794.1 + 99756 0.67 0.918127
Target:  5'- gUCUGGCCGAcguugccgccgcccgCGGuGCCGGcgUCGACu -3'
miRNA:   3'- uGGACCGGCUaa-------------GCC-UGGUCa-AGCUG- -5'
10945 3' -55.5 NC_002794.1 + 154346 0.67 0.935409
Target:  5'- uGCCgcGGCCGAgcucccgcgCGGuCCAGgccgCGGCg -3'
miRNA:   3'- -UGGa-CCGGCUaa-------GCCuGGUCaa--GCUG- -5'
10945 3' -55.5 NC_002794.1 + 20371 0.67 0.935409
Target:  5'- cACCUGcGCCGGaUCGucGACgCGGUgCGGCg -3'
miRNA:   3'- -UGGAC-CGGCUaAGC--CUG-GUCAaGCUG- -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.