miRNA display CGI


Results 1 - 20 of 28 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
13003 5' -55.8 NC_003387.1 + 10512 0.66 0.693093
Target:  5'- cGGGGCGC-UCGgcucggcgaUGCGGGCCggGUUCGg -3'
miRNA:   3'- -CCUCGUGuAGC---------ACGUCCGGgaUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 1499 0.66 0.683311
Target:  5'- cGAGCACcaggccgcggccgaCGUGCAGGCUCagcacCUCGg -3'
miRNA:   3'- cCUCGUGua------------GCACGUCCGGGau---GAGC- -5'
13003 5' -55.8 NC_003387.1 + 39692 0.66 0.682222
Target:  5'- cGGcguuGCGCAgcgaCGUGCGGGCgCUG-UCGa -3'
miRNA:   3'- -CCu---CGUGUa---GCACGUCCGgGAUgAGC- -5'
13003 5' -55.8 NC_003387.1 + 23980 0.66 0.682222
Target:  5'- gGGcGGCugGUUGUGCAccgCCUGCUCGc -3'
miRNA:   3'- -CC-UCGugUAGCACGUccgGGAUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 3622 0.66 0.682222
Target:  5'- cGAGCugAgcgggCGUGCGGGUaucgccgucgaCCgGCUCGu -3'
miRNA:   3'- cCUCGugUa----GCACGUCCG-----------GGaUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 11597 0.66 0.66802
Target:  5'- cGGcGCGCugccacuugauccgGUCGUGCAGcGCCagcaGCUCGc -3'
miRNA:   3'- -CCuCGUG--------------UAGCACGUC-CGGga--UGAGC- -5'
13003 5' -55.8 NC_003387.1 + 30719 0.66 0.649366
Target:  5'- cGGGGCGCucagcCGgGCAGGugaCCCgGCUCGu -3'
miRNA:   3'- -CCUCGUGua---GCaCGUCC---GGGaUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 5292 0.66 0.649366
Target:  5'- uGGGU--GUUGUGCaugAGGCCCUcCUCGg -3'
miRNA:   3'- cCUCGugUAGCACG---UCCGGGAuGAGC- -5'
13003 5' -55.8 NC_003387.1 + 38904 0.66 0.649366
Target:  5'- uGGAGCGg---GUGCGGGCgUUUGCUCGc -3'
miRNA:   3'- -CCUCGUguagCACGUCCG-GGAUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 39479 0.66 0.649366
Target:  5'- uGGuGCGCAgaUCGcUGUcGGCC-UGCUCGg -3'
miRNA:   3'- -CCuCGUGU--AGC-ACGuCCGGgAUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 7769 0.67 0.642769
Target:  5'- cGGAGCACcgcaagAUCcgcaagcugcccgagGUGCAGGCCgaGCUg- -3'
miRNA:   3'- -CCUCGUG------UAG---------------CACGUCCGGgaUGAgc -5'
13003 5' -55.8 NC_003387.1 + 26674 0.67 0.59442
Target:  5'- cGGGUGCugcguuUCGUGCAGcucGCgCUGCUCGu -3'
miRNA:   3'- cCUCGUGu-----AGCACGUC---CGgGAUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 3160 0.67 0.587857
Target:  5'- cGGGCGCAccUCG-GCgAGGCcguaaucggggugagCCUGCUCGg -3'
miRNA:   3'- cCUCGUGU--AGCaCG-UCCG---------------GGAUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 13436 0.68 0.5726
Target:  5'- gGGGGCuugcCGUCGUcgaGCAGcuuGCCCaGCUCGc -3'
miRNA:   3'- -CCUCGu---GUAGCA---CGUC---CGGGaUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 51221 0.68 0.561759
Target:  5'- --uGCACGUCGgccGC-GGCCUggUGCUCGa -3'
miRNA:   3'- ccuCGUGUAGCa--CGuCCGGG--AUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 51599 0.68 0.540254
Target:  5'- cGAGCACAcCGUGC--GCCCUagcgucGCUCa -3'
miRNA:   3'- cCUCGUGUaGCACGucCGGGA------UGAGc -5'
13003 5' -55.8 NC_003387.1 + 6089 0.68 0.539186
Target:  5'- cGGGGCGuCGUCG-GCAGGCucgaacaCCUGCg-- -3'
miRNA:   3'- -CCUCGU-GUAGCaCGUCCG-------GGAUGagc -5'
13003 5' -55.8 NC_003387.1 + 36232 0.68 0.538118
Target:  5'- cGAGCugAcCGUGUAcgccgacccgcuGCCCUGCUCGa -3'
miRNA:   3'- cCUCGugUaGCACGUc-----------CGGGAUGAGC- -5'
13003 5' -55.8 NC_003387.1 + 35688 0.68 0.519034
Target:  5'- cGGGCACGU-GUGgGGGCCgUACggCGa -3'
miRNA:   3'- cCUCGUGUAgCACgUCCGGgAUGa-GC- -5'
13003 5' -55.8 NC_003387.1 + 19401 0.69 0.477652
Target:  5'- uGuGCAgCGUCGUGCGGGCCUUGa--- -3'
miRNA:   3'- cCuCGU-GUAGCACGUCCGGGAUgagc -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.