miRNA display CGI


Results 1 - 20 of 80 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
12843 3' -53.5 NC_003387.1 + 40308 0.66 0.790383
Target:  5'- aUCAGCUCccacagcggcgcacCGGAGUUGaUCGCCUGCa -3'
miRNA:   3'- aAGUCGAGca------------GCUUUAGC-AGCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 30936 0.66 0.789378
Target:  5'- -cCGGC-CGUCGcAGAUCGU-GCgCCGCu -3'
miRNA:   3'- aaGUCGaGCAGC-UUUAGCAgCG-GGUG- -5'
12843 3' -53.5 NC_003387.1 + 2176 0.66 0.789378
Target:  5'- -gCAGCUCGgCGccuUgGUCGCCgACa -3'
miRNA:   3'- aaGUCGAGCaGCuuuAgCAGCGGgUG- -5'
12843 3' -53.5 NC_003387.1 + 33468 0.66 0.789378
Target:  5'- -gCGGCcgaagUCGcCGAGgcgGUCGgCGCCCGCg -3'
miRNA:   3'- aaGUCG-----AGCaGCUU---UAGCaGCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 34206 0.66 0.789378
Target:  5'- -aCAGCgccaCGUCGcgGUCGgUGCCCGg -3'
miRNA:   3'- aaGUCGa---GCAGCuuUAGCaGCGGGUg -5'
12843 3' -53.5 NC_003387.1 + 50428 0.66 0.789378
Target:  5'- -cCAGUUCcUUGAcuUCGUCGCUgGCg -3'
miRNA:   3'- aaGUCGAGcAGCUuuAGCAGCGGgUG- -5'
12843 3' -53.5 NC_003387.1 + 51365 0.66 0.779231
Target:  5'- --gAGCggUCGUCGggGUCGgCGUCCuCg -3'
miRNA:   3'- aagUCG--AGCAGCuuUAGCaGCGGGuG- -5'
12843 3' -53.5 NC_003387.1 + 316 0.66 0.779231
Target:  5'- -aCAGCggGUCGAGGUgGUCGgCCu- -3'
miRNA:   3'- aaGUCGagCAGCUUUAgCAGCgGGug -5'
12843 3' -53.5 NC_003387.1 + 23042 0.66 0.779231
Target:  5'- cUCGGCcaCGUCGAcGUCGaCGUCgGCg -3'
miRNA:   3'- aAGUCGa-GCAGCUuUAGCaGCGGgUG- -5'
12843 3' -53.5 NC_003387.1 + 26128 0.66 0.779231
Target:  5'- gUCGGCgCGUCc--GUCGcCGCUCGCg -3'
miRNA:   3'- aAGUCGaGCAGcuuUAGCaGCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 25991 0.66 0.758468
Target:  5'- ---cGCUCGcCGggGUCGcgauccagcUCGCgCCGCg -3'
miRNA:   3'- aaguCGAGCaGCuuUAGC---------AGCG-GGUG- -5'
12843 3' -53.5 NC_003387.1 + 4765 0.66 0.747877
Target:  5'- -cCAGCUCG-CGGugcuUCG-CGgCCCACa -3'
miRNA:   3'- aaGUCGAGCaGCUuu--AGCaGC-GGGUG- -5'
12843 3' -53.5 NC_003387.1 + 24156 0.66 0.747877
Target:  5'- --gGGCgUCGUCGAcggcGAUCGccgccucggUCGCCCAa -3'
miRNA:   3'- aagUCG-AGCAGCU----UUAGC---------AGCGGGUg -5'
12843 3' -53.5 NC_003387.1 + 35593 0.67 0.737162
Target:  5'- --gAGCUgGUCGAcacagCGaUCGCCUACg -3'
miRNA:   3'- aagUCGAgCAGCUuua--GC-AGCGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 49192 0.67 0.726336
Target:  5'- -gCGGC-CGUCGAcGUUGcugaGCCCGCa -3'
miRNA:   3'- aaGUCGaGCAGCUuUAGCag--CGGGUG- -5'
12843 3' -53.5 NC_003387.1 + 44380 0.67 0.726336
Target:  5'- -aCAGCggcaCGUCGggGUCGUCgagGUCgGCc -3'
miRNA:   3'- aaGUCGa---GCAGCuuUAGCAG---CGGgUG- -5'
12843 3' -53.5 NC_003387.1 + 2275 0.67 0.726336
Target:  5'- gUCGGCUCGaCGucGUCcUCGCUgGCg -3'
miRNA:   3'- aAGUCGAGCaGCuuUAGcAGCGGgUG- -5'
12843 3' -53.5 NC_003387.1 + 24279 0.67 0.725248
Target:  5'- -cCAGCUCGUCGA--UCGUguacaccaugagcCGCCgCAg -3'
miRNA:   3'- aaGUCGAGCAGCUuuAGCA-------------GCGG-GUg -5'
12843 3' -53.5 NC_003387.1 + 46967 0.67 0.715412
Target:  5'- aUCAGCUCGUCGGccGAggCGUUcaGCUCGu -3'
miRNA:   3'- aAGUCGAGCAGCU--UUa-GCAG--CGGGUg -5'
12843 3' -53.5 NC_003387.1 + 3614 0.67 0.715412
Target:  5'- -aCAGCgggugcgCGUCGAGGugcucgacuUCGUaCGCCUGCg -3'
miRNA:   3'- aaGUCGa------GCAGCUUU---------AGCA-GCGGGUG- -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.