miRNA display CGI


Results 1 - 20 of 31 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
27189 3' -58.7 NC_005832.1 + 17243 0.66 0.736078
Target:  5'- cACAGGCCAGA-ACGAagccaGGGuuCUCcCGg -3'
miRNA:   3'- -UGUCCGGUCUcUGCU-----CCCugGAGaGC- -5'
27189 3' -58.7 NC_005832.1 + 88282 0.66 0.726209
Target:  5'- -aAGGuCCAGGagccuGGCcAGGGuCCUCUCGg -3'
miRNA:   3'- ugUCC-GGUCU-----CUGcUCCCuGGAGAGC- -5'
27189 3' -58.7 NC_005832.1 + 94761 0.66 0.705231
Target:  5'- uGCAGGCCcaGGAGgaucugcGCGAGGGccgacgcgGCCUgaUCGg -3'
miRNA:   3'- -UGUCCGG--UCUC-------UGCUCCC--------UGGAg-AGC- -5'
27189 3' -58.7 NC_005832.1 + 53864 0.66 0.696151
Target:  5'- cACGGcaccGCCAGGGA-GAGGGGCUccguUCUCc -3'
miRNA:   3'- -UGUC----CGGUCUCUgCUCCCUGG----AGAGc -5'
27189 3' -58.7 NC_005832.1 + 79421 0.66 0.686011
Target:  5'- -gAGGCCuGGGugGAGcGGCCUCccuggCGa -3'
miRNA:   3'- ugUCCGGuCUCugCUCcCUGGAGa----GC- -5'
27189 3' -58.7 NC_005832.1 + 56439 0.67 0.655357
Target:  5'- cCAGGCCGucaAGAUaGAGGG-CUUCUCGu -3'
miRNA:   3'- uGUCCGGUc--UCUG-CUCCCuGGAGAGC- -5'
27189 3' -58.7 NC_005832.1 + 79877 0.67 0.655357
Target:  5'- aGCAGGCC-GAGGaGAGGGcgGCCauggcCUCGg -3'
miRNA:   3'- -UGUCCGGuCUCUgCUCCC--UGGa----GAGC- -5'
27189 3' -58.7 NC_005832.1 + 85926 0.67 0.634813
Target:  5'- cGCAGGCUccuGGACcuuuuGAGGGGCCUCa-- -3'
miRNA:   3'- -UGUCCGGuc-UCUG-----CUCCCUGGAGagc -5'
27189 3' -58.7 NC_005832.1 + 66385 0.67 0.634813
Target:  5'- cCAGGgaCGGAGACGGGGGcaugucauaGCCUC-Ca -3'
miRNA:   3'- uGUCCg-GUCUCUGCUCCC---------UGGAGaGc -5'
27189 3' -58.7 NC_005832.1 + 9623 0.67 0.634813
Target:  5'- uCAGGCCAGGGcCGAcGGcaaGACC-CUCa -3'
miRNA:   3'- uGUCCGGUCUCuGCU-CC---CUGGaGAGc -5'
27189 3' -58.7 NC_005832.1 + 44796 0.67 0.624534
Target:  5'- gGCAGGuCCAGGGA-GGGGGGCauaaagaUCGg -3'
miRNA:   3'- -UGUCC-GGUCUCUgCUCCCUGgag----AGC- -5'
27189 3' -58.7 NC_005832.1 + 5903 0.67 0.624534
Target:  5'- aACAuGGauuucgaCGGGGACGAGGGcaACCUCUa- -3'
miRNA:   3'- -UGU-CCg------GUCUCUGCUCCC--UGGAGAgc -5'
27189 3' -58.7 NC_005832.1 + 47067 0.68 0.58355
Target:  5'- cCGGGUCAGAGACGuucgagugGGaGGACCaCUUGa -3'
miRNA:   3'- uGUCCGGUCUCUGC--------UC-CCUGGaGAGC- -5'
27189 3' -58.7 NC_005832.1 + 84 0.68 0.58355
Target:  5'- gGCAccGGCCugGGAGugGGGGGAUCUggUUUGg -3'
miRNA:   3'- -UGU--CCGG--UCUCugCUCCCUGGA--GAGC- -5'
27189 3' -58.7 NC_005832.1 + 42498 0.69 0.553157
Target:  5'- aGCAGGCCGaAGACGccgaucGGGCCUCUg- -3'
miRNA:   3'- -UGUCCGGUcUCUGCuc----CCUGGAGAgc -5'
27189 3' -58.7 NC_005832.1 + 6532 0.69 0.553157
Target:  5'- -gGGGCCAGGGACaGGGGGCagg-CGg -3'
miRNA:   3'- ugUCCGGUCUCUGcUCCCUGgagaGC- -5'
27189 3' -58.7 NC_005832.1 + 50256 0.69 0.533157
Target:  5'- aGCAGaGUCGGGcGuCGAGGGccACCUCUCu -3'
miRNA:   3'- -UGUC-CGGUCU-CuGCUCCC--UGGAGAGc -5'
27189 3' -58.7 NC_005832.1 + 36393 0.69 0.533157
Target:  5'- -gAGGCCGcc-GCGAGGGuCCUCUCc -3'
miRNA:   3'- ugUCCGGUcucUGCUCCCuGGAGAGc -5'
27189 3' -58.7 NC_005832.1 + 91018 0.69 0.523254
Target:  5'- -uGGGCCAGguAGACcAGGGugCcCUCGg -3'
miRNA:   3'- ugUCCGGUC--UCUGcUCCCugGaGAGC- -5'
27189 3' -58.7 NC_005832.1 + 48015 0.69 0.512442
Target:  5'- gACAGGcCCGGAGACGAgguguuuauggcgGGGGCCa---- -3'
miRNA:   3'- -UGUCC-GGUCUCUGCU-------------CCCUGGagagc -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.