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
30628 3' -54.4 NC_006549.1 + 30090 0.66 0.937956
Target:  5'- aCGCCGuaCCUAGgcAAAGCGCGcaagaagcGUACg -3'
miRNA:   3'- gGCGGCcgGGGUU--UUUCGCGUa-------CAUG- -5'
30628 3' -54.4 NC_006549.1 + 40580 0.66 0.924411
Target:  5'- cCCGCCGGCUuaCCAgggaaaaaaggaauaAAGGGUGCGg--ACg -3'
miRNA:   3'- -GGCGGCCGG--GGU---------------UUUUCGCGUacaUG- -5'
30628 3' -54.4 NC_006549.1 + 72518 0.67 0.916423
Target:  5'- aCCGCCGcGCgcgccacguuuCCCAu---GCGCGUGUu- -3'
miRNA:   3'- -GGCGGC-CG-----------GGGUuuuuCGCGUACAug -5'
30628 3' -54.4 NC_006549.1 + 1205 0.67 0.902253
Target:  5'- gUGCUGGUgaCCGuuGAagaaaaaaugaacaGAGCGCAUGUGCa -3'
miRNA:   3'- gGCGGCCGg-GGU--UU--------------UUCGCGUACAUG- -5'
30628 3' -54.4 NC_006549.1 + 2777 0.67 0.897685
Target:  5'- cCCGUgGGCCUCAGcGAGCag--GUGCg -3'
miRNA:   3'- -GGCGgCCGGGGUUuUUCGcguaCAUG- -5'
30628 3' -54.4 NC_006549.1 + 41409 0.68 0.869369
Target:  5'- cCCGCgGGCCCCGuuGGGC-CAa---- -3'
miRNA:   3'- -GGCGgCCGGGGUuuUUCGcGUacaug -5'
30628 3' -54.4 NC_006549.1 + 100700 0.69 0.837528
Target:  5'- -gGCUGGCgaCCAAAgcGCGCugGUGUGCc -3'
miRNA:   3'- ggCGGCCGg-GGUUUuuCGCG--UACAUG- -5'
30628 3' -54.4 NC_006549.1 + 55358 0.69 0.837528
Target:  5'- uUGCCGGUgCCG---GGCGCGUGa-- -3'
miRNA:   3'- gGCGGCCGgGGUuuuUCGCGUACaug -5'
30628 3' -54.4 NC_006549.1 + 41060 0.69 0.832472
Target:  5'- cCCGCUGGCCCCAcaggaccauccGgcccgcaaggugacaGAGGCGCAa---- -3'
miRNA:   3'- -GGCGGCCGGGGU-----------U---------------UUUCGCGUacaug -5'
30628 3' -54.4 NC_006549.1 + 41823 0.7 0.784132
Target:  5'- gCGCCGGgCCCGAGAGGgccCGCggGUcCa -3'
miRNA:   3'- gGCGGCCgGGGUUUUUC---GCGuaCAuG- -5'
30628 3' -54.4 NC_006549.1 + 12010 0.71 0.735665
Target:  5'- cCCGCUaGCCCCAGGAGGCcCAgagACa -3'
miRNA:   3'- -GGCGGcCGGGGUUUUUCGcGUacaUG- -5'
30628 3' -54.4 NC_006549.1 + 12064 0.71 0.735665
Target:  5'- cCCGCUaGCCCCAGGAGGCcCAgagACa -3'
miRNA:   3'- -GGCGGcCGGGGUUUUUCGcGUacaUG- -5'
30628 3' -54.4 NC_006549.1 + 12118 0.71 0.735665
Target:  5'- cCCGCUaGCCCCAGGAGGCcCAgagACa -3'
miRNA:   3'- -GGCGGcCGGGGUUUUUCGcGUacaUG- -5'
30628 3' -54.4 NC_006549.1 + 12172 0.71 0.735665
Target:  5'- cCCGCUaGCCCCAGGAGGCcCAgagACa -3'
miRNA:   3'- -GGCGGcCGGGGUUUUUCGcGUacaUG- -5'
30628 3' -54.4 NC_006549.1 + 12226 0.71 0.735665
Target:  5'- cCCGCUaGCCCCAGGAGGCcCAgagACa -3'
miRNA:   3'- -GGCGGcCGGGGUUUUUCGcGUacaUG- -5'
30628 3' -54.4 NC_006549.1 + 11956 0.71 0.705386
Target:  5'- cCCGCUaGCCCCAGGAGGCcCAgagGCa -3'
miRNA:   3'- -GGCGGcCGGGGUUUUUCGcGUacaUG- -5'
30628 3' -54.4 NC_006549.1 + 128336 0.72 0.653762
Target:  5'- aUCGCgCGGUCUCAuAAAAGCGCAcgUGUAa -3'
miRNA:   3'- -GGCG-GCCGGGGU-UUUUCGCGU--ACAUg -5'
30628 3' -54.4 NC_006549.1 + 50988 0.73 0.612082
Target:  5'- gCCGaUCGGCCCUAAGGGGCcCAUGggGCc -3'
miRNA:   3'- -GGC-GGCCGGGGUUUUUCGcGUACa-UG- -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.