miRNA display CGI


Results 1 - 20 of 30 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
18534 3' -54.9 NC_004681.1 + 73093 1.11 0.001204
Target:  5'- uCCGACUGCAGUUCGACAGCCUCAGCGg -3'
miRNA:   3'- -GGCUGACGUCAAGCUGUCGGAGUCGC- -5'
18534 3' -54.9 NC_004681.1 + 61362 0.67 0.794751
Target:  5'- cCCGucGCUGCGGUgggCaACAGCUcgcguguccaaggUCGGCGg -3'
miRNA:   3'- -GGC--UGACGUCAa--GcUGUCGG-------------AGUCGC- -5'
18534 3' -54.9 NC_004681.1 + 63413 0.66 0.80416
Target:  5'- cUCGACUGCGGUccugaauUCccuGGCcaccaggcuuccAGCCUCGGCc -3'
miRNA:   3'- -GGCUGACGUCA-------AG---CUG------------UCGGAGUCGc -5'
18534 3' -54.9 NC_004681.1 + 70793 0.66 0.805092
Target:  5'- uCCG-UUG-AG-UCGcAUAGCCUCAGCGg -3'
miRNA:   3'- -GGCuGACgUCaAGC-UGUCGGAGUCGC- -5'
18534 3' -54.9 NC_004681.1 + 12807 0.66 0.832194
Target:  5'- aCCGacgcaGCUGCAGcaCGuACGGCCaUUGGCGc -3'
miRNA:   3'- -GGC-----UGACGUCaaGC-UGUCGG-AGUCGC- -5'
18534 3' -54.9 NC_004681.1 + 18290 0.66 0.832194
Target:  5'- aCGGCcGCAGUccUCGACuGGCggUCAGCa -3'
miRNA:   3'- gGCUGaCGUCA--AGCUG-UCGg-AGUCGc -5'
18534 3' -54.9 NC_004681.1 + 27756 0.66 0.840839
Target:  5'- gUGACgcgcgGCAGcggCGGCAGCggCGGCGc -3'
miRNA:   3'- gGCUGa----CGUCaa-GCUGUCGgaGUCGC- -5'
18534 3' -54.9 NC_004681.1 + 8941 0.66 0.840839
Target:  5'- gCCuGCUGCAgcGUUCGAcCGGCUUCAccGCc -3'
miRNA:   3'- -GGcUGACGU--CAAGCU-GUCGGAGU--CGc -5'
18534 3' -54.9 NC_004681.1 + 62072 0.66 0.840839
Target:  5'- aUGACUgugcGCGGcaUGGCGGCCUCcaugGGCGg -3'
miRNA:   3'- gGCUGA----CGUCaaGCUGUCGGAG----UCGC- -5'
18534 3' -54.9 NC_004681.1 + 44649 0.67 0.794751
Target:  5'- aCCGACUGCaccgugcaggccaAGgacacccuccUCGACGGCaaCGGCGa -3'
miRNA:   3'- -GGCUGACG-------------UCa---------AGCUGUCGgaGUCGC- -5'
18534 3' -54.9 NC_004681.1 + 20170 0.67 0.776438
Target:  5'- cCCGGCUGCgcucGGUgaUCGACuugucGCCcaaUCAGCc -3'
miRNA:   3'- -GGCUGACG----UCA--AGCUGu----CGG---AGUCGc -5'
18534 3' -54.9 NC_004681.1 + 18375 0.74 0.398596
Target:  5'- aUCGACaugGCAGgccaggCGGCGGCCgCGGCGg -3'
miRNA:   3'- -GGCUGa--CGUCaa----GCUGUCGGaGUCGC- -5'
18534 3' -54.9 NC_004681.1 + 41766 0.71 0.534808
Target:  5'- aCCucCUGCAcgccuccagGUUCGACGGCCUUcGCGc -3'
miRNA:   3'- -GGcuGACGU---------CAAGCUGUCGGAGuCGC- -5'
18534 3' -54.9 NC_004681.1 + 19351 0.7 0.623961
Target:  5'- aCCGACg--AGUUCGACcgggucgaccacaccGGCCUgGGCGa -3'
miRNA:   3'- -GGCUGacgUCAAGCUG---------------UCGGAgUCGC- -5'
18534 3' -54.9 NC_004681.1 + 72099 0.68 0.704044
Target:  5'- cUCGAUUGCAGUcuucaugUC-ACAGCC-CAGCc -3'
miRNA:   3'- -GGCUGACGUCA-------AGcUGUCGGaGUCGc -5'
18534 3' -54.9 NC_004681.1 + 51719 0.68 0.705096
Target:  5'- cCCGGggaacCUGguGgucgUCGGCGGCCgcccCGGCGc -3'
miRNA:   3'- -GGCU-----GACguCa---AGCUGUCGGa---GUCGC- -5'
18534 3' -54.9 NC_004681.1 + 28143 0.68 0.715577
Target:  5'- gCGGCgGCGGaUCGAgCGGCggCAGCGg -3'
miRNA:   3'- gGCUGaCGUCaAGCU-GUCGgaGUCGC- -5'
18534 3' -54.9 NC_004681.1 + 73119 0.68 0.725978
Target:  5'- -gGucuCUGCcuccgccUCGACAGCCUCAGCc -3'
miRNA:   3'- ggCu--GACGuca----AGCUGUCGGAGUCGc -5'
18534 3' -54.9 NC_004681.1 + 30576 0.67 0.754596
Target:  5'- aCCGGCgcaagcgccaagGCGGUUCG-CuGCCUgaCGGCGu -3'
miRNA:   3'- -GGCUGa-----------CGUCAAGCuGuCGGA--GUCGC- -5'
18534 3' -54.9 NC_004681.1 + 61769 0.66 0.840839
Target:  5'- cUCGGCgGCGGccuccgcggCGGCGGCUUCuGCGc -3'
miRNA:   3'- -GGCUGaCGUCaa-------GCUGUCGGAGuCGC- -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.