miRNA display CGI


Results 1 - 20 of 54 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
26278 3' -57.1 NC_005345.2 + 43694 0.77 0.142285
Target:  5'- -aGCCUCGccgcguGGgcCGGCCUCGACCUCGa -3'
miRNA:   3'- gcUGGAGC------CCaaGCUGGAGCUGGAGC- -5'
26278 3' -57.1 NC_005345.2 + 41275 0.66 0.608919
Target:  5'- gGACCggCGGGUgggUGugCUgGggccGCCUCGg -3'
miRNA:   3'- gCUGGa-GCCCAa--GCugGAgC----UGGAGC- -5'
26278 3' -57.1 NC_005345.2 + 35555 0.66 0.630396
Target:  5'- gGGCCgccuUCGGGcUCGcCCgggacgCGAUCUCGa -3'
miRNA:   3'- gCUGG----AGCCCaAGCuGGa-----GCUGGAGC- -5'
26278 3' -57.1 NC_005345.2 + 24198 0.66 0.662598
Target:  5'- uCGACCgacuaCGGGcUCGAcguCCUCGACa-CGg -3'
miRNA:   3'- -GCUGGa----GCCCaAGCU---GGAGCUGgaGC- -5'
26278 3' -57.1 NC_005345.2 + 18994 0.71 0.350572
Target:  5'- uGGCCggCGGGa-CGACCUCGAcggguggcgcgccgcCCUCGg -3'
miRNA:   3'- gCUGGa-GCCCaaGCUGGAGCU---------------GGAGC- -5'
26278 3' -57.1 NC_005345.2 + 30798 0.71 0.372319
Target:  5'- uGACCgacuGG-UCGACCUCGACC-CGg -3'
miRNA:   3'- gCUGGagc-CCaAGCUGGAGCUGGaGC- -5'
26278 3' -57.1 NC_005345.2 + 8950 0.7 0.389662
Target:  5'- gGGCUgCGGGUgcUCGGgCUCGACCUg- -3'
miRNA:   3'- gCUGGaGCCCA--AGCUgGAGCUGGAgc -5'
26278 3' -57.1 NC_005345.2 + 11384 0.7 0.389662
Target:  5'- gCGGCCgccugCGGGcgagcagcUCGACCUCGACgaCGc -3'
miRNA:   3'- -GCUGGa----GCCCa-------AGCUGGAGCUGgaGC- -5'
26278 3' -57.1 NC_005345.2 + 26109 0.69 0.461127
Target:  5'- aCGACCUCGGcGggaugcagcuggUCGaguucgcccggauGCC-CGACCUCGg -3'
miRNA:   3'- -GCUGGAGCC-Ca-----------AGC-------------UGGaGCUGGAGC- -5'
26278 3' -57.1 NC_005345.2 + 44689 0.66 0.605702
Target:  5'- aCGGCCgcCGGGcccccgccggagccUccacaCGACCUCGAUCUCGc -3'
miRNA:   3'- -GCUGGa-GCCC--------------Aa----GCUGGAGCUGGAGC- -5'
26278 3' -57.1 NC_005345.2 + 23181 0.68 0.493809
Target:  5'- cCGACgcgCUCGGGUUCGACC--GGCUgCGg -3'
miRNA:   3'- -GCUG---GAGCCCAAGCUGGagCUGGaGC- -5'
26278 3' -57.1 NC_005345.2 + 18153 0.7 0.407525
Target:  5'- cCGGCgUCGGGUaCaGCCUCGG-CUCGg -3'
miRNA:   3'- -GCUGgAGCCCAaGcUGGAGCUgGAGC- -5'
26278 3' -57.1 NC_005345.2 + 9962 0.76 0.167136
Target:  5'- gCGGCC-CGGGUUCGggcugggguccGCCUCGACCa-- -3'
miRNA:   3'- -GCUGGaGCCCAAGC-----------UGGAGCUGGagc -5'
26278 3' -57.1 NC_005345.2 + 604 0.67 0.552548
Target:  5'- uCGGCCgccacCGGGUgaccauggugcggaUCGcguCCUCGGCCUgCGg -3'
miRNA:   3'- -GCUGGa----GCCCA--------------AGCu--GGAGCUGGA-GC- -5'
26278 3' -57.1 NC_005345.2 + 22201 0.73 0.259549
Target:  5'- uCGACggggaCGGGaUCGucuGCCUCGACCUCGa -3'
miRNA:   3'- -GCUGga---GCCCaAGC---UGGAGCUGGAGC- -5'
26278 3' -57.1 NC_005345.2 + 26952 0.7 0.389662
Target:  5'- gCGACCggcugaUCGGGUUCGuCCUCGcgGCgUUCGa -3'
miRNA:   3'- -GCUGG------AGCCCAAGCuGGAGC--UG-GAGC- -5'
26278 3' -57.1 NC_005345.2 + 9922 0.67 0.587518
Target:  5'- uGACCg-GGGcagUCGGCgUCGGCC-CGa -3'
miRNA:   3'- gCUGGagCCCa--AGCUGgAGCUGGaGC- -5'
26278 3' -57.1 NC_005345.2 + 21194 0.66 0.630396
Target:  5'- -cGCCguUCGGGUUcacgcgcuccgcCGACCUCGACggcaccgcgCUCGg -3'
miRNA:   3'- gcUGG--AGCCCAA------------GCUGGAGCUG---------GAGC- -5'
26278 3' -57.1 NC_005345.2 + 24790 0.72 0.296606
Target:  5'- cCGACCUCGGcaagguggugcagccGggCGACCggaUCGugCUCGg -3'
miRNA:   3'- -GCUGGAGCC---------------CaaGCUGG---AGCugGAGC- -5'
26278 3' -57.1 NC_005345.2 + 40980 0.71 0.372319
Target:  5'- uCGACCUCGGcgUCGGCggCGACUUCc -3'
miRNA:   3'- -GCUGGAGCCcaAGCUGgaGCUGGAGc -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.