miRNA display CGI


Results 1 - 17 of 17 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
19670 3' -55.5 NC_004686.1 + 14904 0.66 0.707077
Target:  5'- --gAUCGGguccUUGGGCGGcACGGUCg -3'
miRNA:   3'- aagUAGCCacauAGCCCGCC-UGUCGG- -5'
19670 3' -55.5 NC_004686.1 + 39038 0.66 0.695187
Target:  5'- -gCAUCGcGgcu-UCccacuccgacugaGGGCGGGCAGCCa -3'
miRNA:   3'- aaGUAGC-CacauAG-------------CCCGCCUGUCGG- -5'
19670 3' -55.5 NC_004686.1 + 11096 0.66 0.678858
Target:  5'- cUCAaCGGUGgugcguacaucgucaUGUCGGG-GGACgugcGGCCa -3'
miRNA:   3'- aAGUaGCCAC---------------AUAGCCCgCCUG----UCGG- -5'
19670 3' -55.5 NC_004686.1 + 2192 0.67 0.652538
Target:  5'- aUCGUCGGUGUAUCGGaucGAUuGUCu -3'
miRNA:   3'- aAGUAGCCACAUAGCCcgcCUGuCGG- -5'
19670 3' -55.5 NC_004686.1 + 45099 0.67 0.630515
Target:  5'- cUUCAUCGGcggugagcaUGUGcUCGccGG-GGGCAGCCa -3'
miRNA:   3'- -AAGUAGCC---------ACAU-AGC--CCgCCUGUCGG- -5'
19670 3' -55.5 NC_004686.1 + 51349 0.68 0.597516
Target:  5'- -aCAUCGaaGUG-CaGGUGGGCAGCCa -3'
miRNA:   3'- aaGUAGCcaCAUaGcCCGCCUGUCGG- -5'
19670 3' -55.5 NC_004686.1 + 9540 0.68 0.586563
Target:  5'- gUCAUCGGUaaggGUAUCGGccUGGGCaucaaGGCCg -3'
miRNA:   3'- aAGUAGCCA----CAUAGCCc-GCCUG-----UCGG- -5'
19670 3' -55.5 NC_004686.1 + 6901 0.69 0.540002
Target:  5'- -aCGUCGGUccGUCGGGUucGGACcaagcgcguacuucAGCCg -3'
miRNA:   3'- aaGUAGCCAcaUAGCCCG--CCUG--------------UCGG- -5'
19670 3' -55.5 NC_004686.1 + 19035 0.69 0.532532
Target:  5'- cUguUCGGUGUGggCGGGuCGGGugcUGGCCg -3'
miRNA:   3'- aAguAGCCACAUa-GCCC-GCCU---GUCGG- -5'
19670 3' -55.5 NC_004686.1 + 29843 0.69 0.532532
Target:  5'- --gGUCGG-Gg--CGGGgGGugGGCCa -3'
miRNA:   3'- aagUAGCCaCauaGCCCgCCugUCGG- -5'
19670 3' -55.5 NC_004686.1 + 24269 0.7 0.469251
Target:  5'- aUUCGUUGGUGUucacgcguccgaaGUCGaaGGCuGGGCAGCg -3'
miRNA:   3'- -AAGUAGCCACA-------------UAGC--CCG-CCUGUCGg -5'
19670 3' -55.5 NC_004686.1 + 47294 0.71 0.421323
Target:  5'- aUCcgCGGgcgaGgagGUCGGcGCGGAUGGCCc -3'
miRNA:   3'- aAGuaGCCa---Ca--UAGCC-CGCCUGUCGG- -5'
19670 3' -55.5 NC_004686.1 + 9339 0.71 0.402626
Target:  5'- gUCcgggCGGUGgcUCGGGCGGA-AGCg -3'
miRNA:   3'- aAGua--GCCACauAGCCCGCCUgUCGg -5'
19670 3' -55.5 NC_004686.1 + 6392 0.71 0.384463
Target:  5'- gUUCGUgCGGUGcgguUCuGGCGGGuCAGCCg -3'
miRNA:   3'- -AAGUA-GCCACau--AGcCCGCCU-GUCGG- -5'
19670 3' -55.5 NC_004686.1 + 27560 0.73 0.317425
Target:  5'- -gUAUCGGUGaucGUUGGGCGGAgAacGCCa -3'
miRNA:   3'- aaGUAGCCACa--UAGCCCGCCUgU--CGG- -5'
19670 3' -55.5 NC_004686.1 + 9412 0.73 0.302102
Target:  5'- -cCAUCGGgaacggGUUGGGCGGgucgaagaacGCAGCCg -3'
miRNA:   3'- aaGUAGCCaca---UAGCCCGCC----------UGUCGG- -5'
19670 3' -55.5 NC_004686.1 + 22692 1.1 0.000776
Target:  5'- gUUCAUCGGUGUAUCGGGCGGACAGCCg -3'
miRNA:   3'- -AAGUAGCCACAUAGCCCGCCUGUCGG- -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.