miRNA display CGI


Results 1 - 14 of 14 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
14004 3' -53.9 NC_003521.1 + 59162 0.66 0.991073
Target:  5'- aUCAgcugCGGcaCGGCgCCGCGGGcaGUCAg -3'
miRNA:   3'- -GGUa---GCCaaGUCG-GGCGCCUaaCAGU- -5'
14004 3' -53.9 NC_003521.1 + 95956 0.66 0.990606
Target:  5'- aCGgaugCGGUUCGGggaCCCGCGGGgagcgaucuccgcUGUCGu -3'
miRNA:   3'- gGUa---GCCAAGUC---GGGCGCCUa------------ACAGU- -5'
14004 3' -53.9 NC_003521.1 + 165946 0.66 0.985485
Target:  5'- uCCAggUCGGggu-GCUCGCGGAagaUGUCGu -3'
miRNA:   3'- -GGU--AGCCaaguCGGGCGCCUa--ACAGU- -5'
14004 3' -53.9 NC_003521.1 + 180502 0.66 0.98374
Target:  5'- gCCGUUGcccagagAGCCCGUGGggUGUCGu -3'
miRNA:   3'- -GGUAGCcaag---UCGGGCGCCuaACAGU- -5'
14004 3' -53.9 NC_003521.1 + 166528 0.66 0.98374
Target:  5'- gCGUCaGUagGGCCCGCagcugcgacGGAUUGUUg -3'
miRNA:   3'- gGUAGcCAagUCGGGCG---------CCUAACAGu -5'
14004 3' -53.9 NC_003521.1 + 192131 0.67 0.981842
Target:  5'- cUCGUCGGcuccgUCGGCguCCGCGGAUccacguagGUCu -3'
miRNA:   3'- -GGUAGCCa----AGUCG--GGCGCCUAa-------CAGu -5'
14004 3' -53.9 NC_003521.1 + 192321 0.67 0.979781
Target:  5'- gCGUCGG--CGGCaCCGUGGGUaccGUCAg -3'
miRNA:   3'- gGUAGCCaaGUCG-GGCGCCUAa--CAGU- -5'
14004 3' -53.9 NC_003521.1 + 174062 0.67 0.979781
Target:  5'- gCCggCGGcaUCA-CCCGCGGGaUGUCGu -3'
miRNA:   3'- -GGuaGCCa-AGUcGGGCGCCUaACAGU- -5'
14004 3' -53.9 NC_003521.1 + 45432 0.67 0.975145
Target:  5'- gCCGUCGGcgCGGUcauggccucgCCGUGGcgUGUUg -3'
miRNA:   3'- -GGUAGCCaaGUCG----------GGCGCCuaACAGu -5'
14004 3' -53.9 NC_003521.1 + 181334 0.68 0.963632
Target:  5'- gCCGUCuGGUUCuguAGCUgcaGCGuGAUUGUCGc -3'
miRNA:   3'- -GGUAG-CCAAG---UCGGg--CGC-CUAACAGU- -5'
14004 3' -53.9 NC_003521.1 + 151522 0.68 0.956661
Target:  5'- gCCGUCGGccagaggCGGCgcggaCGCGGGUUGUa- -3'
miRNA:   3'- -GGUAGCCaa-----GUCGg----GCGCCUAACAgu -5'
14004 3' -53.9 NC_003521.1 + 212068 0.72 0.845502
Target:  5'- gCUAgggCGGUggcgCGGCCCGCGcgcgucuGGUUGUCGg -3'
miRNA:   3'- -GGUa--GCCAa---GUCGGGCGC-------CUAACAGU- -5'
14004 3' -53.9 NC_003521.1 + 188030 0.77 0.57317
Target:  5'- gCGUCGGacaUCAGCCggugcaGCGGGUUGUCGa -3'
miRNA:   3'- gGUAGCCa--AGUCGGg-----CGCCUAACAGU- -5'
14004 3' -53.9 NC_003521.1 + 189613 1.02 0.022051
Target:  5'- aCCAUCGG-UCAGCCCGCGGAUUGUCAc -3'
miRNA:   3'- -GGUAGCCaAGUCGGGCGCCUAACAGU- -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.