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
26286 3' -56.6 NC_005345.2 + 46398 0.66 0.593189
Target:  5'- gCGUGGCGCgCUCCacaUGCgGGCcgCUGUCa -3'
miRNA:   3'- -GUACUGCG-GGGGa--ACGaUCGa-GACGG- -5'
26286 3' -56.6 NC_005345.2 + 46112 0.66 0.582153
Target:  5'- ----cCGCCCCCgcaaGCgAGCaugCUGCCg -3'
miRNA:   3'- guacuGCGGGGGaa--CGaUCGa--GACGG- -5'
26286 3' -56.6 NC_005345.2 + 12267 0.66 0.571161
Target:  5'- uCGUcGCGagCCCC-UGC-AGCUCUGCUg -3'
miRNA:   3'- -GUAcUGCg-GGGGaACGaUCGAGACGG- -5'
26286 3' -56.6 NC_005345.2 + 32494 0.67 0.538519
Target:  5'- --cGGCGCUCCggUGCcguccCUCUGCCg -3'
miRNA:   3'- guaCUGCGGGGgaACGauc--GAGACGG- -5'
26286 3' -56.6 NC_005345.2 + 4798 0.68 0.475397
Target:  5'- gGUGAcgauCGCCCCCcgGC-AGCUCgGCg -3'
miRNA:   3'- gUACU----GCGGGGGaaCGaUCGAGaCGg -5'
26286 3' -56.6 NC_005345.2 + 41485 0.68 0.455174
Target:  5'- --gGGgGCuCCCCUUcacaGCggccGCUCUGCCg -3'
miRNA:   3'- guaCUgCG-GGGGAA----CGau--CGAGACGG- -5'
26286 3' -56.6 NC_005345.2 + 9093 0.69 0.407693
Target:  5'- gGUGACgGUCCCCgcuguguggucgagcUGCUcGaCUCUGCCg -3'
miRNA:   3'- gUACUG-CGGGGGa--------------ACGAuC-GAGACGG- -5'
26286 3' -56.6 NC_005345.2 + 3873 0.7 0.370429
Target:  5'- --cGGCGUCCCUgcGCU-GCUCUccGCCg -3'
miRNA:   3'- guaCUGCGGGGGaaCGAuCGAGA--CGG- -5'
26286 3' -56.6 NC_005345.2 + 2010 0.7 0.353116
Target:  5'- ---aGCGCCCCCUcGCUccgcuGCUCcgggGCCg -3'
miRNA:   3'- guacUGCGGGGGAaCGAu----CGAGa---CGG- -5'
26286 3' -56.6 NC_005345.2 + 31566 0.7 0.336382
Target:  5'- --gGACGCgCacgaCCUgaUGC-AGCUCUGCCg -3'
miRNA:   3'- guaCUGCG-Gg---GGA--ACGaUCGAGACGG- -5'
26286 3' -56.6 NC_005345.2 + 47162 0.7 0.336382
Target:  5'- uGUGAgCGCCgCCUcgcggcacUGCcAGUUCUGCCc -3'
miRNA:   3'- gUACU-GCGGgGGA--------ACGaUCGAGACGG- -5'
26286 3' -56.6 NC_005345.2 + 12589 0.71 0.297115
Target:  5'- gGUGucgcCGCCCCCgaaGCgcacgAGCUCgggGCCg -3'
miRNA:   3'- gUACu---GCGGGGGaa-CGa----UCGAGa--CGG- -5'
26286 3' -56.6 NC_005345.2 + 35206 0.72 0.268335
Target:  5'- --gGGCGCCCCgUUGCU-GUUCaggcgGCCg -3'
miRNA:   3'- guaCUGCGGGGgAACGAuCGAGa----CGG- -5'
26286 3' -56.6 NC_005345.2 + 47573 0.72 0.248258
Target:  5'- uCGUGACgGCCCCCacgGC-GGCgaCUGCCg -3'
miRNA:   3'- -GUACUG-CGGGGGaa-CGaUCGa-GACGG- -5'
26286 3' -56.6 NC_005345.2 + 25397 1.1 0.000444
Target:  5'- gCAUGACGCCCCCUUGCUAGCUCUGCCc -3'
miRNA:   3'- -GUACUGCGGGGGAACGAUCGAGACGG- -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.