miRNA display CGI


Results 1 - 20 of 41 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
7351 3' -52.1 NC_001900.1 + 25993 0.66 0.886014
Target:  5'- gCUACCuGGC-UCGCGGugUCCcgcaGCCa -3'
miRNA:   3'- -GGUGG-CUGaAGCGCUugAGGua--UGGc -5'
7351 3' -52.1 NC_001900.1 + 31570 0.73 0.486042
Target:  5'- aCCACCGAgCUgacccaUCGCcugcagaccGGACUCCAUgaGCCGg -3'
miRNA:   3'- -GGUGGCU-GA------AGCG---------CUUGAGGUA--UGGC- -5'
7351 3' -52.1 NC_001900.1 + 10006 0.71 0.582913
Target:  5'- gCCACCGGCaUCGCGGAggUCAU-CCa -3'
miRNA:   3'- -GGUGGCUGaAGCGCUUgaGGUAuGGc -5'
7351 3' -52.1 NC_001900.1 + 47806 0.71 0.582913
Target:  5'- aCCACCGAacccgcCGCcAGCUCCGcUGCCGc -3'
miRNA:   3'- -GGUGGCUgaa---GCGcUUGAGGU-AUGGC- -5'
7351 3' -52.1 NC_001900.1 + 35217 0.7 0.694009
Target:  5'- gCACCGGCUgguacCGGGCUCCgGUAUCGa -3'
miRNA:   3'- gGUGGCUGAagc--GCUUGAGG-UAUGGC- -5'
7351 3' -52.1 NC_001900.1 + 42588 0.69 0.715845
Target:  5'- gCCGuuGACa--GCGGACUCCAgaGCCu -3'
miRNA:   3'- -GGUggCUGaagCGCUUGAGGUa-UGGc -5'
7351 3' -52.1 NC_001900.1 + 21057 0.68 0.768741
Target:  5'- aCACCGGCccgaacggCGUGAuCUUCGUGCCc -3'
miRNA:   3'- gGUGGCUGaa------GCGCUuGAGGUAUGGc -5'
7351 3' -52.1 NC_001900.1 + 39116 0.68 0.768741
Target:  5'- aCGCCGAUcUCuuCGGGCUUgAUGCCGa -3'
miRNA:   3'- gGUGGCUGaAGc-GCUUGAGgUAUGGC- -5'
7351 3' -52.1 NC_001900.1 + 18648 0.68 0.78897
Target:  5'- aCAUCGACcggCGCGggUUCC-UGCuCGa -3'
miRNA:   3'- gGUGGCUGaa-GCGCuuGAGGuAUG-GC- -5'
7351 3' -52.1 NC_001900.1 + 2431 0.68 0.79884
Target:  5'- uCgGCCGACgagacaUCGCGGACUggaCC-UACCa -3'
miRNA:   3'- -GgUGGCUGa-----AGCGCUUGA---GGuAUGGc -5'
7351 3' -52.1 NC_001900.1 + 22173 0.68 0.79884
Target:  5'- aCCGCCGACggCGaCGGuuccggCCGUugCGa -3'
miRNA:   3'- -GGUGGCUGaaGC-GCUuga---GGUAugGC- -5'
7351 3' -52.1 NC_001900.1 + 8222 0.67 0.80853
Target:  5'- aUCACCGGC-UCGCGAG-UCUGgaaggACCGc -3'
miRNA:   3'- -GGUGGCUGaAGCGCUUgAGGUa----UGGC- -5'
7351 3' -52.1 NC_001900.1 + 32765 0.67 0.812353
Target:  5'- cCCGCCugGACUgcgucguagaugucCGCGAGCg-CGUACCGg -3'
miRNA:   3'- -GGUGG--CUGAa-------------GCGCUUGagGUAUGGC- -5'
7351 3' -52.1 NC_001900.1 + 43074 0.67 0.81803
Target:  5'- gCGCCGAUUccucgacguaGCGGGCgugccCCAUGCCGu -3'
miRNA:   3'- gGUGGCUGAag--------CGCUUGa----GGUAUGGC- -5'
7351 3' -52.1 NC_001900.1 + 38167 0.67 0.816145
Target:  5'- gCCugCGACaaccccuuucgUGCGGGCUCCAUGuuCCu -3'
miRNA:   3'- -GGugGCUGaa---------GCGCUUGAGGUAU--GGc -5'
7351 3' -52.1 NC_001900.1 + 6620 0.66 0.893386
Target:  5'- aCGCUGuACUUCucgGCGGACUCCG-ACgCGu -3'
miRNA:   3'- gGUGGC-UGAAG---CGCUUGAGGUaUG-GC- -5'
7351 3' -52.1 NC_001900.1 + 24246 0.66 0.886014
Target:  5'- aCCACCGGCagCGaUGAGCgugCCAccGCCc -3'
miRNA:   3'- -GGUGGCUGaaGC-GCUUGa--GGUa-UGGc -5'
7351 3' -52.1 NC_001900.1 + 8843 0.66 0.886014
Target:  5'- uCCACCGAgcgauCUUCGCGGgccACUCgAUGg-- -3'
miRNA:   3'- -GGUGGCU-----GAAGCGCU---UGAGgUAUggc -5'
7351 3' -52.1 NC_001900.1 + 41992 0.66 0.870477
Target:  5'- gUCACCGucguggGCguagUCGCGGACcucgaagCCGUACUGc -3'
miRNA:   3'- -GGUGGC------UGa---AGCGCUUGa------GGUAUGGC- -5'
7351 3' -52.1 NC_001900.1 + 20777 0.66 0.853924
Target:  5'- aCGCgGACUucgUCGCGGGuCUCCAcggaGCCc -3'
miRNA:   3'- gGUGgCUGA---AGCGCUU-GAGGUa---UGGc -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.