miRNA display CGI


Results 1 - 19 of 19 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
13310 3' -58.7 NC_003409.1 + 114065 0.66 0.780059
Target:  5'- gACGUGCCcaaaCUGG-GACa-CGGCGUCg -3'
miRNA:   3'- aUGUACGGa---GACCgCUGcaGCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 16804 0.66 0.770809
Target:  5'- --uGUGCCagacuacCUGGCGGCcgcgCGGgGCCa -3'
miRNA:   3'- augUACGGa------GACCGCUGca--GCCgCGG- -5'
13310 3' -58.7 NC_003409.1 + 32149 0.66 0.757655
Target:  5'- cUGgAUGCCagcucuaggaaggCUGGCGACGUgauggcucCGGUGCa -3'
miRNA:   3'- -AUgUACGGa------------GACCGCUGCA--------GCCGCGg -5'
13310 3' -58.7 NC_003409.1 + 43522 0.66 0.751951
Target:  5'- gUACAccacgGCCUCUGGgcagcagGugGcCGGCGUCc -3'
miRNA:   3'- -AUGUa----CGGAGACCg------CugCaGCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 96862 0.67 0.732679
Target:  5'- gGCAcGCUUCUGGCGGa---GGCGUg -3'
miRNA:   3'- aUGUaCGGAGACCGCUgcagCCGCGg -5'
13310 3' -58.7 NC_003409.1 + 59041 0.67 0.70315
Target:  5'- gGCGgcgGUUUCUGGUgaacagucgGAguucuaucgacCGUCGGCGCCg -3'
miRNA:   3'- aUGUa--CGGAGACCG---------CU-----------GCAGCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 14898 0.67 0.70315
Target:  5'- cGCGUugccGCCUgUGGCGuuuGCGUCGGC-Ca -3'
miRNA:   3'- aUGUA----CGGAgACCGC---UGCAGCCGcGg -5'
13310 3' -58.7 NC_003409.1 + 50067 0.68 0.673091
Target:  5'- cACGgagGCgUCcGGUacuGGCGUgGGCGCCg -3'
miRNA:   3'- aUGUa--CGgAGaCCG---CUGCAgCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 60462 0.68 0.662994
Target:  5'- aACAcGCCcgugacCUGGCGAUcugggaGUUGGCGCUg -3'
miRNA:   3'- aUGUaCGGa-----GACCGCUG------CAGCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 49086 0.68 0.652873
Target:  5'- cGCGUGUUcCUGGCGGC-UCGacuguggcGCGCCa -3'
miRNA:   3'- aUGUACGGaGACCGCUGcAGC--------CGCGG- -5'
13310 3' -58.7 NC_003409.1 + 19065 0.69 0.612305
Target:  5'- cUAC-UGCacaCUCUGGUGAUGUCGGCcgagGUCu -3'
miRNA:   3'- -AUGuACG---GAGACCGCUGCAGCCG----CGG- -5'
13310 3' -58.7 NC_003409.1 + 110589 0.7 0.512823
Target:  5'- ----cGCCucuUCUGGCGAUGUCgguaGGCGCa -3'
miRNA:   3'- auguaCGG---AGACCGCUGCAG----CCGCGg -5'
13310 3' -58.7 NC_003409.1 + 111390 0.72 0.438268
Target:  5'- gACucuUGCCUCUcccgacGGUuGCGUgGGCGCCa -3'
miRNA:   3'- aUGu--ACGGAGA------CCGcUGCAgCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 5452 0.72 0.438268
Target:  5'- aACAUcCCUCcuaUGGCaGCGUCGGUGUCa -3'
miRNA:   3'- aUGUAcGGAG---ACCGcUGCAGCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 109727 0.73 0.378405
Target:  5'- gACGcGCUUCUGGCGugGcgaagUGGCGCa -3'
miRNA:   3'- aUGUaCGGAGACCGCugCa----GCCGCGg -5'
13310 3' -58.7 NC_003409.1 + 81193 0.73 0.370312
Target:  5'- gACAgaaGCUggugCUGGCGACGUCuucgccGCGCCa -3'
miRNA:   3'- aUGUa--CGGa---GACCGCUGCAGc-----CGCGG- -5'
13310 3' -58.7 NC_003409.1 + 119793 0.75 0.289286
Target:  5'- cGCGUGCCa--GGCGccgGCGUgGGCGCCg -3'
miRNA:   3'- aUGUACGGagaCCGC---UGCAgCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 31944 0.75 0.27614
Target:  5'- gUACAcgGCCaCUGuGCcGCGUCGGCGCCc -3'
miRNA:   3'- -AUGUa-CGGaGAC-CGcUGCAGCCGCGG- -5'
13310 3' -58.7 NC_003409.1 + 59246 1.1 0.0011
Target:  5'- aUACAUGCCUCUGGCGACGUCGGCGCCg -3'
miRNA:   3'- -AUGUACGGAGACCGCUGCAGCCGCGG- -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.