miRNA display CGI


Results 1 - 20 of 56 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
24238 3' -55.6 NC_005263.2 + 25219 0.7 0.442878
Target:  5'- gGCACGAACGcCGUGCcgaucCCGGC-CGacgaaUCCg -3'
miRNA:   3'- -UGUGCUUGUaGCACG-----GGCCGaGC-----AGG- -5'
24238 3' -55.6 NC_005263.2 + 30532 0.68 0.577921
Target:  5'- uGCGCGAGCAgcUCGaUGCgCuGCUCGacgUCCu -3'
miRNA:   3'- -UGUGCUUGU--AGC-ACGgGcCGAGC---AGG- -5'
24238 3' -55.6 NC_005263.2 + 26986 0.68 0.556269
Target:  5'- cGCGcCGAGCAgcaccCGcugcGCCgGGCUCGUCg -3'
miRNA:   3'- -UGU-GCUUGUa----GCa---CGGgCCGAGCAGg -5'
24238 3' -55.6 NC_005263.2 + 35433 0.68 0.534858
Target:  5'- gACGCGAACGaCGacCCCGGCgCG-CCg -3'
miRNA:   3'- -UGUGCUUGUaGCacGGGCCGaGCaGG- -5'
24238 3' -55.6 NC_005263.2 + 17317 0.69 0.513745
Target:  5'- cGCGCGAAU-UCG-GCCCGGCg---CCg -3'
miRNA:   3'- -UGUGCUUGuAGCaCGGGCCGagcaGG- -5'
24238 3' -55.6 NC_005263.2 + 18857 0.69 0.503316
Target:  5'- cGCGUGAACAacgCGUGCCuCGGCgCG-CCg -3'
miRNA:   3'- -UGUGCUUGUa--GCACGG-GCCGaGCaGG- -5'
24238 3' -55.6 NC_005263.2 + 18937 0.69 0.482743
Target:  5'- gGCACGAGCGcUCGagcGCgCCGGUUCGagCg -3'
miRNA:   3'- -UGUGCUUGU-AGCa--CG-GGCCGAGCagG- -5'
24238 3' -55.6 NC_005263.2 + 45097 0.69 0.471603
Target:  5'- cGCGCGcuACGUCGcggcggaUGCgCCGGCgagCGUCUa -3'
miRNA:   3'- -UGUGCu-UGUAGC-------ACG-GGCCGa--GCAGG- -5'
24238 3' -55.6 NC_005263.2 + 43782 0.7 0.462585
Target:  5'- uGCACG-AUAUCGUGCgCGGCgCGaUCa -3'
miRNA:   3'- -UGUGCuUGUAGCACGgGCCGaGC-AGg -5'
24238 3' -55.6 NC_005263.2 + 24376 0.68 0.577921
Target:  5'- gGCGCGAACAUCGUGCa-GGUagGg-- -3'
miRNA:   3'- -UGUGCUUGUAGCACGggCCGagCagg -5'
24238 3' -55.6 NC_005263.2 + 3515 0.67 0.588817
Target:  5'- cGCGCGGcaaucuucuucaGCGucUCGcGgCCGGCgUCGUCCa -3'
miRNA:   3'- -UGUGCU------------UGU--AGCaCgGGCCG-AGCAGG- -5'
24238 3' -55.6 NC_005263.2 + 10188 0.67 0.632678
Target:  5'- uCGCGAGCAggccgaagcgcUCGccgGCCUcgGGCUCGagUCCa -3'
miRNA:   3'- uGUGCUUGU-----------AGCa--CGGG--CCGAGC--AGG- -5'
24238 3' -55.6 NC_005263.2 + 22402 0.66 0.698239
Target:  5'- cCGCGAACGUaCGcGCcgCCGuGCUCG-CCg -3'
miRNA:   3'- uGUGCUUGUA-GCaCG--GGC-CGAGCaGG- -5'
24238 3' -55.6 NC_005263.2 + 36168 0.66 0.676524
Target:  5'- -gGCGAACGUCGauaCCGGC-CGgcugCCg -3'
miRNA:   3'- ugUGCUUGUAGCacgGGCCGaGCa---GG- -5'
24238 3' -55.6 NC_005263.2 + 33727 0.66 0.676524
Target:  5'- cGCAccCGGACGagCG-GCCCGGCaUCGggcCCg -3'
miRNA:   3'- -UGU--GCUUGUa-GCaCGGGCCG-AGCa--GG- -5'
24238 3' -55.6 NC_005263.2 + 47439 0.66 0.676524
Target:  5'- aGCACGGGCAcuacCGUGCCUuGCguuucaCGUUCa -3'
miRNA:   3'- -UGUGCUUGUa---GCACGGGcCGa-----GCAGG- -5'
24238 3' -55.6 NC_005263.2 + 10405 0.66 0.665599
Target:  5'- -gGCGAGCGg---GUCCGGCgcgCGUUCa -3'
miRNA:   3'- ugUGCUUGUagcaCGGGCCGa--GCAGG- -5'
24238 3' -55.6 NC_005263.2 + 38429 0.66 0.654643
Target:  5'- aGCGCGAcguGCGUuaCGUGCUCGGCggCGa-- -3'
miRNA:   3'- -UGUGCU---UGUA--GCACGGGCCGa-GCagg -5'
24238 3' -55.6 NC_005263.2 + 22228 0.66 0.654643
Target:  5'- uCGCcGGCGUCG-GCCCGGUUgCGacgCCg -3'
miRNA:   3'- uGUGcUUGUAGCaCGGGCCGA-GCa--GG- -5'
24238 3' -55.6 NC_005263.2 + 9460 0.67 0.643666
Target:  5'- cCACGGGCAgcggCGcGCCCGGCUg---- -3'
miRNA:   3'- uGUGCUUGUa---GCaCGGGCCGAgcagg -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.