miRNA display CGI


Results 21 - 36 of 36 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
11935 3' -59.1 NC_003278.1 + 9278 0.68 0.300755
Target:  5'- aGcGCCGGguCGGUGUCGAUGaaGcGGa -3'
miRNA:   3'- aC-CGGCUguGCCGCAGCUACggCaCC- -5'
11935 3' -59.1 NC_003278.1 + 30954 0.68 0.300755
Target:  5'- aGGCCGcGCAgcuCGGUgagGUCGAaGCgGUGGg -3'
miRNA:   3'- aCCGGC-UGU---GCCG---CAGCUaCGgCACC- -5'
11935 3' -59.1 NC_003278.1 + 8607 0.68 0.300755
Target:  5'- aUGGCCucaGCAgGGCGgCGAcguUGCCGcGGg -3'
miRNA:   3'- -ACCGGc--UGUgCCGCaGCU---ACGGCaCC- -5'
11935 3' -59.1 NC_003278.1 + 22886 0.69 0.293387
Target:  5'- -uGCUGACACgccugGGCGaggacuUCGAUGCgGUGGc -3'
miRNA:   3'- acCGGCUGUG-----CCGC------AGCUACGgCACC- -5'
11935 3' -59.1 NC_003278.1 + 29872 0.69 0.286161
Target:  5'- -cGCCGGCGCGGCuguuGUCGcUGCgGUcGGc -3'
miRNA:   3'- acCGGCUGUGCCG----CAGCuACGgCA-CC- -5'
11935 3' -59.1 NC_003278.1 + 8040 0.69 0.264653
Target:  5'- aGGCCGAgGCccaugauGGCGcCG--GCCGUGGc -3'
miRNA:   3'- aCCGGCUgUG-------CCGCaGCuaCGGCACC- -5'
11935 3' -59.1 NC_003278.1 + 30506 0.69 0.258659
Target:  5'- gUGGCCGACGCGGCaacccugcgCGAccUGCUGa-- -3'
miRNA:   3'- -ACCGGCUGUGCCGca-------GCU--ACGGCacc -5'
11935 3' -59.1 NC_003278.1 + 32767 0.7 0.245104
Target:  5'- gGuGCCGGCugGGCcgucccaGUCGGUGaCCG-GGu -3'
miRNA:   3'- aC-CGGCUGugCCG-------CAGCUAC-GGCaCC- -5'
11935 3' -59.1 NC_003278.1 + 22085 0.7 0.239478
Target:  5'- cUGGCCGGCAgcGCGUUGA-GCC-UGGa -3'
miRNA:   3'- -ACCGGCUGUgcCGCAGCUaCGGcACC- -5'
11935 3' -59.1 NC_003278.1 + 32969 0.71 0.204685
Target:  5'- -cGCCGGCGCGGUGUCG--GCCaGUGc -3'
miRNA:   3'- acCGGCUGUGCCGCAGCuaCGG-CACc -5'
11935 3' -59.1 NC_003278.1 + 14629 0.71 0.199331
Target:  5'- cUGGCCGGCaACGGCcugGUCG--GCgGUGGc -3'
miRNA:   3'- -ACCGGCUG-UGCCG---CAGCuaCGgCACC- -5'
11935 3' -59.1 NC_003278.1 + 21529 0.72 0.174358
Target:  5'- gGGCCGGCcuggcCGGCGcCGAgGCCcUGGg -3'
miRNA:   3'- aCCGGCUGu----GCCGCaGCUaCGGcACC- -5'
11935 3' -59.1 NC_003278.1 + 28263 0.72 0.165173
Target:  5'- gGGCCGAgGCGGCGgguuccuugUCGGUGgCCGg-- -3'
miRNA:   3'- aCCGGCUgUGCCGC---------AGCUAC-GGCacc -5'
11935 3' -59.1 NC_003278.1 + 31765 0.73 0.156426
Target:  5'- aGGCCGGC-CGGguccaCGUCGAUGCCa--- -3'
miRNA:   3'- aCCGGCUGuGCC-----GCAGCUACGGcacc -5'
11935 3' -59.1 NC_003278.1 + 32353 0.75 0.097519
Target:  5'- gGGCCG--GCGGCGUCGAUaucGCCG-GGc -3'
miRNA:   3'- aCCGGCugUGCCGCAGCUA---CGGCaCC- -5'
11935 3' -59.1 NC_003278.1 + 28591 1.1 0.000253
Target:  5'- aUGGCCGACACGGCGUCGAUGCCGUGGu -3'
miRNA:   3'- -ACCGGCUGUGCCGCAGCUACGGCACC- -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.