miRNA display CGI


Results 1 - 20 of 59 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
12852 5' -56.1 NC_003387.1 + 45242 0.68 0.55077
Target:  5'- cGGGUGCGGgugCG-CGG-CUCGGugaUCGCc -3'
miRNA:   3'- aCCCGCGCCa--GCaGCUuGAGCU---AGUG- -5'
12852 5' -56.1 NC_003387.1 + 15421 0.67 0.637479
Target:  5'- -cGGCGCGGUCGaCGAccGCgccgaCGAgCGCg -3'
miRNA:   3'- acCCGCGCCAGCaGCU--UGa----GCUaGUG- -5'
12852 5' -56.1 NC_003387.1 + 20177 0.67 0.637479
Target:  5'- aGGGCGCGGUUGaugCGcuGCUgCGccUCGCa -3'
miRNA:   3'- aCCCGCGCCAGCa--GCu-UGA-GCu-AGUG- -5'
12852 5' -56.1 NC_003387.1 + 35162 0.67 0.636387
Target:  5'- gGGGCGuuGUCGcccuugucacccuUCGGGC-CGAUCAg -3'
miRNA:   3'- aCCCGCgcCAGC-------------AGCUUGaGCUAGUg -5'
12852 5' -56.1 NC_003387.1 + 33392 0.67 0.626561
Target:  5'- aGGuucucgcCGCGcUCGUCGcuguACUCGGUCACg -3'
miRNA:   3'- aCCc------GCGCcAGCAGCu---UGAGCUAGUG- -5'
12852 5' -56.1 NC_003387.1 + 6141 0.67 0.615648
Target:  5'- aGGGCGCcacugugagGGUCGgCGuAGC-CGAUCAg -3'
miRNA:   3'- aCCCGCG---------CCAGCaGC-UUGaGCUAGUg -5'
12852 5' -56.1 NC_003387.1 + 48263 0.67 0.605838
Target:  5'- cGGGCucgGCGGUCGgcucggccuucggcgCGGGCUCGGcgaACg -3'
miRNA:   3'- aCCCG---CGCCAGCa--------------GCUUGAGCUag-UG- -5'
12852 5' -56.1 NC_003387.1 + 6089 0.68 0.572225
Target:  5'- cGGG-GC-GUCGUCGGcagGCUCGAaCACc -3'
miRNA:   3'- aCCCgCGcCAGCAGCU---UGAGCUaGUG- -5'
12852 5' -56.1 NC_003387.1 + 1445 0.68 0.572225
Target:  5'- aGGGCucGgGGUCGUCGucCUCG-UCGa -3'
miRNA:   3'- aCCCG--CgCCAGCAGCuuGAGCuAGUg -5'
12852 5' -56.1 NC_003387.1 + 16322 0.66 0.648392
Target:  5'- -cGGCGcCGGU-GUCGAugUUGAcCGCg -3'
miRNA:   3'- acCCGC-GCCAgCAGCUugAGCUaGUG- -5'
12852 5' -56.1 NC_003387.1 + 6780 0.66 0.658201
Target:  5'- --uGCGCGGgcCGUCGGcgaacacGCUCGggCACg -3'
miRNA:   3'- accCGCGCCa-GCAGCU-------UGAGCuaGUG- -5'
12852 5' -56.1 NC_003387.1 + 33990 0.66 0.65929
Target:  5'- cGGGuCGCGGUCGacgaCGAGCUgccUGcuGUCAUa -3'
miRNA:   3'- aCCC-GCGCCAGCa---GCUUGA---GC--UAGUG- -5'
12852 5' -56.1 NC_003387.1 + 2923 0.66 0.691795
Target:  5'- cGGGCGaGGcucUCGUCGAACUgCGccaGCa -3'
miRNA:   3'- aCCCGCgCC---AGCAGCUUGA-GCuagUG- -5'
12852 5' -56.1 NC_003387.1 + 27929 0.66 0.681003
Target:  5'- gUGGGCGCc-UCGggggGGGCUCGGUCGg -3'
miRNA:   3'- -ACCCGCGccAGCag--CUUGAGCUAGUg -5'
12852 5' -56.1 NC_003387.1 + 15633 0.66 0.681003
Target:  5'- aGGGCGCGcaCGgCGAGgUCGAcCAUg -3'
miRNA:   3'- aCCCGCGCcaGCaGCUUgAGCUaGUG- -5'
12852 5' -56.1 NC_003387.1 + 9031 0.66 0.681003
Target:  5'- cGGGCGCcGUCGgCGAuccACgccagGAUCGCg -3'
miRNA:   3'- aCCCGCGcCAGCaGCU---UGag---CUAGUG- -5'
12852 5' -56.1 NC_003387.1 + 12303 0.66 0.670164
Target:  5'- cGGGC-CGGUucgcCGUCGccGACguaGGUCACg -3'
miRNA:   3'- aCCCGcGCCA----GCAGC--UUGag-CUAGUG- -5'
12852 5' -56.1 NC_003387.1 + 2516 0.66 0.670164
Target:  5'- aGGugacGCGCgGGUCGUCGuuGCcguccCGGUCGCg -3'
miRNA:   3'- aCC----CGCG-CCAGCAGCu-UGa----GCUAGUG- -5'
12852 5' -56.1 NC_003387.1 + 49925 0.66 0.665818
Target:  5'- gGGGCaaaCGGguuugcccucgaaCGUCGcgccguGCUCGAUCACg -3'
miRNA:   3'- aCCCGc--GCCa------------GCAGCu-----UGAGCUAGUG- -5'
12852 5' -56.1 NC_003387.1 + 1219 0.66 0.65929
Target:  5'- gGGGCaUGGcUCGUCGAGCUgcuccugccCGGUCugGCg -3'
miRNA:   3'- aCCCGcGCC-AGCAGCUUGA---------GCUAG--UG- -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.