miRNA display CGI


Results 1 - 18 of 18 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
18406 3' -55.1 NC_004681.1 + 1538 0.66 0.808144
Target:  5'- gGuGACCgGGCcaGCCUUCAGcuGggCGGCGg -3'
miRNA:   3'- gC-CUGGgCCG--UGGAAGUU--CaaGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 27016 0.66 0.805341
Target:  5'- aCGGAuggcacaccgccuaCgCGGuCGCCUUCGAGUccguggUCGGCGu -3'
miRNA:   3'- -GCCU--------------GgGCC-GUGGAAGUUCA------AGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 21431 0.66 0.789168
Target:  5'- aGGugCUGGCGCCguuccUCAAcccCGGCAa -3'
miRNA:   3'- gCCugGGCCGUGGa----AGUUcaaGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 13172 0.66 0.769561
Target:  5'- -aGACagCGGCGgCUUCGAGcUCGGCGa -3'
miRNA:   3'- gcCUGg-GCCGUgGAAGUUCaAGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 1057 0.66 0.769561
Target:  5'- gGGGCUCGuaGCGCCgguaggUCAGGgugaggUCGGCGu -3'
miRNA:   3'- gCCUGGGC--CGUGGa-----AGUUCa-----AGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 7059 0.66 0.769561
Target:  5'- -cGACCgCGGCGCCaUgAAGgaCGGCAc -3'
miRNA:   3'- gcCUGG-GCCGUGGaAgUUCaaGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 6457 0.67 0.759546
Target:  5'- uCGGGCgUGGCGCC--CAAGggcugCAGCGc -3'
miRNA:   3'- -GCCUGgGCCGUGGaaGUUCaa---GUCGU- -5'
18406 3' -55.1 NC_004681.1 + 18552 0.67 0.73915
Target:  5'- gCGGACCCGu--CCaagUCGuGGUUCGGCAa -3'
miRNA:   3'- -GCCUGGGCcguGGa--AGU-UCAAGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 59979 0.67 0.718337
Target:  5'- -cGACgCUGGCGUCUUC-AGUUCGGCGa -3'
miRNA:   3'- gcCUG-GGCCGUGGAAGuUCAAGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 511 0.68 0.697194
Target:  5'- uGGACCCGGCcAUCUUCcg---CGGCc -3'
miRNA:   3'- gCCUGGGCCG-UGGAAGuucaaGUCGu -5'
18406 3' -55.1 NC_004681.1 + 18121 0.68 0.686526
Target:  5'- cCGG-CCaGGCACCgggUCAGGU-CGGCc -3'
miRNA:   3'- -GCCuGGgCCGUGGa--AGUUCAaGUCGu -5'
18406 3' -55.1 NC_004681.1 + 6403 0.68 0.686526
Target:  5'- aGGcCCCGGCGCCgaagCGAccGgcCAGCAc -3'
miRNA:   3'- gCCuGGGCCGUGGaa--GUU--CaaGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 57211 0.68 0.686526
Target:  5'- gGGACuuGGC--CUUCAAGaucgUCGGCAc -3'
miRNA:   3'- gCCUGggCCGugGAAGUUCa---AGUCGU- -5'
18406 3' -55.1 NC_004681.1 + 40439 0.68 0.65426
Target:  5'- uGGACCuCGGCGCCcUUGAGg-CGGCc -3'
miRNA:   3'- gCCUGG-GCCGUGGaAGUUCaaGUCGu -5'
18406 3' -55.1 NC_004681.1 + 51963 0.71 0.525851
Target:  5'- gGGACCaGGUGCCUgccgCGAGgagUCGGCu -3'
miRNA:   3'- gCCUGGgCCGUGGAa---GUUCa--AGUCGu -5'
18406 3' -55.1 NC_004681.1 + 26683 0.72 0.474908
Target:  5'- uGGugCCGGUACuCUgCGAGUUCucguAGCAg -3'
miRNA:   3'- gCCugGGCCGUG-GAaGUUCAAG----UCGU- -5'
18406 3' -55.1 NC_004681.1 + 20096 0.74 0.331275
Target:  5'- uGGACCCGGCGCCgagcccacgaUCAcGUUCGGa- -3'
miRNA:   3'- gCCUGGGCCGUGGa---------AGUuCAAGUCgu -5'
18406 3' -55.1 NC_004681.1 + 20068 1.09 0.001378
Target:  5'- aCGGACCCGGCACCUUCAAGUUCAGCAa -3'
miRNA:   3'- -GCCUGGGCCGUGGAAGUUCAAGUCGU- -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.