miRNA display CGI


Results 1 - 20 of 107 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
5998 3' -59.8 NC_001806.1 + 2458 0.71 0.487736
Target:  5'- cCCCGGC--GGCCCCgUGgGGgUGGGGGu -3'
miRNA:   3'- -GGGUUGuaCCGGGG-ACaUCgGCCCCC- -5'
5998 3' -59.8 NC_001806.1 + 3328 0.71 0.506311
Target:  5'- gCCC-GCG-GGUCCCUccGGCCGcGGGGg -3'
miRNA:   3'- -GGGuUGUaCCGGGGAcaUCGGC-CCCC- -5'
5998 3' -59.8 NC_001806.1 + 4053 0.68 0.642367
Target:  5'- gCCCAGCucgGGCgCCCacacgGccGCCGGGGc -3'
miRNA:   3'- -GGGUUGua-CCG-GGGa----CauCGGCCCCc -5'
5998 3' -59.8 NC_001806.1 + 4345 0.68 0.652245
Target:  5'- gCCCGGCGgcgcucgaugcGGCCCgCgGaGGCCGcGGGGg -3'
miRNA:   3'- -GGGUUGUa----------CCGGG-GaCaUCGGC-CCCC- -5'
5998 3' -59.8 NC_001806.1 + 4729 0.73 0.376052
Target:  5'- uCCCGuuCGcGGCCCCg--GGCCGGGGc -3'
miRNA:   3'- -GGGUu-GUaCCGGGGacaUCGGCCCCc -5'
5998 3' -59.8 NC_001806.1 + 5101 0.69 0.622598
Target:  5'- gCCCGuCGguggGGCCCggGgAGCCGGGGc -3'
miRNA:   3'- -GGGUuGUa---CCGGGgaCaUCGGCCCCc -5'
5998 3' -59.8 NC_001806.1 + 6058 0.7 0.515711
Target:  5'- gCCCGACuccgcgccGGCCCCgggGgcgGGCCcgggcggcGGGGGg -3'
miRNA:   3'- -GGGUUGua------CCGGGGa--Ca--UCGG--------CCCCC- -5'
5998 3' -59.8 NC_001806.1 + 6640 0.66 0.748897
Target:  5'- aCCGuuGCGUGGaCCgcuuCCUGcucGUCGGGGGg -3'
miRNA:   3'- gGGU--UGUACC-GG----GGACau-CGGCCCCC- -5'
5998 3' -59.8 NC_001806.1 + 7018 0.73 0.376052
Target:  5'- aCCCAACccccGGCCCCaGUugGGCCGGGcGa -3'
miRNA:   3'- -GGGUUGua--CCGGGGaCA--UCGGCCC-Cc -5'
5998 3' -59.8 NC_001806.1 + 7860 0.71 0.496984
Target:  5'- aCCaagaGACGUcGCCCCUGUGGCCcuGGcGGa -3'
miRNA:   3'- -GGg---UUGUAcCGGGGACAUCGGc-CC-CC- -5'
5998 3' -59.8 NC_001806.1 + 12797 0.76 0.2679
Target:  5'- gCCGGCGaucaGGCCCauguuguucgggGUGGCCGGGGGa -3'
miRNA:   3'- gGGUUGUa---CCGGGga----------CAUCGGCCCCC- -5'
5998 3' -59.8 NC_001806.1 + 15833 0.69 0.612721
Target:  5'- aUCUGACugucgcacgGGCCCCUuuuggGGCCGcGGGGg -3'
miRNA:   3'- -GGGUUGua-------CCGGGGAca---UCGGC-CCCC- -5'
5998 3' -59.8 NC_001806.1 + 19325 0.67 0.700281
Target:  5'- gCCGACAUGuccagaaaaaaccGCCCCccaAGCCuccGGGGGg -3'
miRNA:   3'- gGGUUGUAC-------------CGGGGacaUCGG---CCCCC- -5'
5998 3' -59.8 NC_001806.1 + 19914 0.66 0.776402
Target:  5'- cCCCGGgGUGcGuCCCCUGUguuucgugGGUgGGGuGGg -3'
miRNA:   3'- -GGGUUgUAC-C-GGGGACA--------UCGgCCC-CC- -5'
5998 3' -59.8 NC_001806.1 + 20376 0.66 0.767343
Target:  5'- uCCCGu--UGGUCCCggcGUccggcgggcgGGaCCGGGGGg -3'
miRNA:   3'- -GGGUuguACCGGGGa--CA----------UC-GGCCCCC- -5'
5998 3' -59.8 NC_001806.1 + 20600 0.69 0.593012
Target:  5'- gCCCAugGCAgaUGGCgCggaUGggcggGGCCGGGGGu -3'
miRNA:   3'- -GGGU--UGU--ACCGgGg--ACa----UCGGCCCCC- -5'
5998 3' -59.8 NC_001806.1 + 20641 0.66 0.790644
Target:  5'- aCCAACGggccgcggccacgGGCCCCcGgcguGCCGGcgucGGGg -3'
miRNA:   3'- gGGUUGUa------------CCGGGGaCau--CGGCC----CCC- -5'
5998 3' -59.8 NC_001806.1 + 20711 0.66 0.758172
Target:  5'- uUCGGgGUGGgCCC----GCCGGGGGg -3'
miRNA:   3'- gGGUUgUACCgGGGacauCGGCCCCC- -5'
5998 3' -59.8 NC_001806.1 + 21504 0.67 0.72053
Target:  5'- -gCGACcgGGCCCC---GGCCcGGGGc -3'
miRNA:   3'- ggGUUGuaCCGGGGacaUCGGcCCCC- -5'
5998 3' -59.8 NC_001806.1 + 22059 0.69 0.612721
Target:  5'- gCCCGGCGccgGGCCCCcGcccCCGGGGcGg -3'
miRNA:   3'- -GGGUUGUa--CCGGGGaCaucGGCCCC-C- -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.