miRNA display CGI


Results 1 - 15 of 15 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
26254 3' -56.3 NC_005345.2 + 35204 0.66 0.59122
Target:  5'- aGGGGCGccccguuGCUGUUCaGGcGGCCguggGCGg -3'
miRNA:   3'- -UUCCGUu------CGACAAGgCCuUCGGa---CGC- -5'
26254 3' -56.3 NC_005345.2 + 35705 0.66 0.590101
Target:  5'- uGGGCAAGCUG--CCGGAcGCgccgaaaCUGCu -3'
miRNA:   3'- uUCCGUUCGACaaGGCCUuCG-------GACGc -5'
26254 3' -56.3 NC_005345.2 + 33512 0.66 0.580049
Target:  5'- -cGGCGAGCag-UCCGGGcaggcggcgAGCC-GCGg -3'
miRNA:   3'- uuCCGUUCGacaAGGCCU---------UCGGaCGC- -5'
26254 3' -56.3 NC_005345.2 + 36217 0.66 0.54684
Target:  5'- -uGGUggGCcagUCCGcGAGCCUGCu -3'
miRNA:   3'- uuCCGuuCGacaAGGCcUUCGGACGc -5'
26254 3' -56.3 NC_005345.2 + 2020 0.66 0.5359
Target:  5'- --cGCuccGCUGcUCCGGGgccGGCCUGCa -3'
miRNA:   3'- uucCGuu-CGACaAGGCCU---UCGGACGc -5'
26254 3' -56.3 NC_005345.2 + 46073 0.67 0.525037
Target:  5'- cAGGC-GGCcgGggCCGccGggGCCUGCGc -3'
miRNA:   3'- uUCCGuUCGa-CaaGGC--CuuCGGACGC- -5'
26254 3' -56.3 NC_005345.2 + 10799 0.67 0.514259
Target:  5'- -cGGCAGGC-GgaCCGGcucgauugguGCCUGCGg -3'
miRNA:   3'- uuCCGUUCGaCaaGGCCuu--------CGGACGC- -5'
26254 3' -56.3 NC_005345.2 + 5730 0.67 0.503572
Target:  5'- cAGGCcGGCcgUGUUCCGGGccgcAGCCgaggacUGCGc -3'
miRNA:   3'- uUCCGuUCG--ACAAGGCCU----UCGG------ACGC- -5'
26254 3' -56.3 NC_005345.2 + 41471 0.68 0.461856
Target:  5'- -cGGCGGGCUGcgCUGGggGCUccccuucacaGCGg -3'
miRNA:   3'- uuCCGUUCGACaaGGCCuuCGGa---------CGC- -5'
26254 3' -56.3 NC_005345.2 + 689 0.68 0.431797
Target:  5'- cGGcGCAGGCU--UCCGGAacAGCUUGCc -3'
miRNA:   3'- uUC-CGUUCGAcaAGGCCU--UCGGACGc -5'
26254 3' -56.3 NC_005345.2 + 13432 0.7 0.357587
Target:  5'- cGGGCGAGCaGUuucggcgcgUCCGGcAGCUUGCc -3'
miRNA:   3'- uUCCGUUCGaCA---------AGGCCuUCGGACGc -5'
26254 3' -56.3 NC_005345.2 + 6646 0.7 0.323984
Target:  5'- -cGGCGucaccgagcAGCUGacCCGGAAGCCUuGCc -3'
miRNA:   3'- uuCCGU---------UCGACaaGGCCUUCGGA-CGc -5'
26254 3' -56.3 NC_005345.2 + 20507 0.72 0.263992
Target:  5'- cGGGGCuuuccGCUGccCCGGGaucGGCCUGCGg -3'
miRNA:   3'- -UUCCGuu---CGACaaGGCCU---UCGGACGC- -5'
26254 3' -56.3 NC_005345.2 + 45570 0.73 0.207625
Target:  5'- cGGGGCGGGCcgGUUgcggCCGGggGCC-GCGa -3'
miRNA:   3'- -UUCCGUUCGa-CAA----GGCCuuCGGaCGC- -5'
26254 3' -56.3 NC_005345.2 + 48455 1.06 0.000887
Target:  5'- gAAGGCAAGCUGUUCCGGAAGCCUGCGc -3'
miRNA:   3'- -UUCCGUUCGACAAGGCCUUCGGACGC- -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.