miRNA display CGI


Results 1 - 20 of 40 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
27427 3' -58.5 NC_005869.1 + 2595 0.66 0.431838
Target:  5'- -gCUUGcGGcacuggcugaagcuGGCGGCGGAGGCcaucggGGCGCa -3'
miRNA:   3'- gaGAGCaUC--------------CUGCCGCCUCCG------CUGCG- -5'
27427 3' -58.5 NC_005869.1 + 3180 0.66 0.425135
Target:  5'- gUCcCGUAGGAggUGGagaaGGGGGCGGagaaGCu -3'
miRNA:   3'- gAGaGCAUCCU--GCCg---CCUCCGCUg---CG- -5'
27427 3' -58.5 NC_005869.1 + 3904 0.66 0.425135
Target:  5'- gUCcCGUAGGAggUGGagaaGGGGGCGGagaaGCu -3'
miRNA:   3'- gAGaGCAUCCU--GCCg---CCUCCGCUg---CG- -5'
27427 3' -58.5 NC_005869.1 + 4589 0.76 0.100258
Target:  5'- -aCUCGUcgAGGACGauggcgauggguccGCGGGcGGCGGCGCg -3'
miRNA:   3'- gaGAGCA--UCCUGC--------------CGCCU-CCGCUGCG- -5'
27427 3' -58.5 NC_005869.1 + 5371 0.68 0.344792
Target:  5'- cCUCUUG-AGGcugaGGCGGcuggugcugaAGGUGGCGCu -3'
miRNA:   3'- -GAGAGCaUCCug--CCGCC----------UCCGCUGCG- -5'
27427 3' -58.5 NC_005869.1 + 5655 0.66 0.43473
Target:  5'- uUC-CGcAGGACGGCcucGGAGGaccacaucUGGCGCu -3'
miRNA:   3'- gAGaGCaUCCUGCCG---CCUCC--------GCUGCG- -5'
27427 3' -58.5 NC_005869.1 + 6771 0.67 0.388053
Target:  5'- gCUggCGggccAGGACGGgGGAuuuuggacggGGCGugGCg -3'
miRNA:   3'- -GAgaGCa---UCCUGCCgCCU----------CCGCugCG- -5'
27427 3' -58.5 NC_005869.1 + 6855 0.72 0.185694
Target:  5'- -gCUCGUGGGAgGGCgcgaGGAGGUucggccgaggugcGGCGCc -3'
miRNA:   3'- gaGAGCAUCCUgCCG----CCUCCG-------------CUGCG- -5'
27427 3' -58.5 NC_005869.1 + 7276 0.67 0.37912
Target:  5'- -gCUCGUAGGccGCGGCggccuugcGGAGGCuGGugUGCg -3'
miRNA:   3'- gaGAGCAUCC--UGCCG--------CCUCCG-CU--GCG- -5'
27427 3' -58.5 NC_005869.1 + 7814 0.7 0.230352
Target:  5'- gUCUgCGUAgcuGGAgCGGUGGuGGCGGCGg -3'
miRNA:   3'- gAGA-GCAU---CCU-GCCGCCuCCGCUGCg -5'
27427 3' -58.5 NC_005869.1 + 7907 0.67 0.388053
Target:  5'- --aUgGUGGG-CGGUGGAcggGGCGGCGg -3'
miRNA:   3'- gagAgCAUCCuGCCGCCU---CCGCUGCg -5'
27427 3' -58.5 NC_005869.1 + 8010 0.66 0.454291
Target:  5'- -cCUCGgGGGAgccgauggGGCGGaAGGCGAUGg -3'
miRNA:   3'- gaGAGCaUCCUg-------CCGCC-UCCGCUGCg -5'
27427 3' -58.5 NC_005869.1 + 8175 0.66 0.44445
Target:  5'- -gCUUGaAGGGCGGUGGcaGGGUGcCGUc -3'
miRNA:   3'- gaGAGCaUCCUGCCGCC--UCCGCuGCG- -5'
27427 3' -58.5 NC_005869.1 + 8247 0.74 0.123192
Target:  5'- -cCUCGUugAGGAgGGCGGuguugguGGCGAgGCa -3'
miRNA:   3'- gaGAGCA--UCCUgCCGCCu------CCGCUgCG- -5'
27427 3' -58.5 NC_005869.1 + 8410 0.67 0.361673
Target:  5'- gCUgUCccAGuGGCGGUGGuAGGUGAUGCu -3'
miRNA:   3'- -GAgAGcaUC-CUGCCGCC-UCCGCUGCG- -5'
27427 3' -58.5 NC_005869.1 + 8443 0.67 0.387153
Target:  5'- gCUCUCcccguccugggugGUGcccuGGA-GGCGGAGGgUGGCGCg -3'
miRNA:   3'- -GAGAG-------------CAU----CCUgCCGCCUCC-GCUGCG- -5'
27427 3' -58.5 NC_005869.1 + 8526 0.66 0.425135
Target:  5'- -cCUCGgcGG-CGGCGGccggucucAGGCGG-GCa -3'
miRNA:   3'- gaGAGCauCCuGCCGCC--------UCCGCUgCG- -5'
27427 3' -58.5 NC_005869.1 + 8585 0.68 0.353161
Target:  5'- -gCUCGggcagcGGGA-GGUGGucGCGGCGCa -3'
miRNA:   3'- gaGAGCa-----UCCUgCCGCCucCGCUGCG- -5'
27427 3' -58.5 NC_005869.1 + 9250 0.73 0.158142
Target:  5'- cCUCUa--AGGAgGGCGGGGGCG-UGCu -3'
miRNA:   3'- -GAGAgcaUCCUgCCGCCUCCGCuGCG- -5'
27427 3' -58.5 NC_005869.1 + 9355 0.67 0.37912
Target:  5'- cCUC-CGcgGGGACGGgGGgcgcaggccgGGGaCGGCGCc -3'
miRNA:   3'- -GAGaGCa-UCCUGCCgCC----------UCC-GCUGCG- -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.