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
19504 3' -52.3 NC_004685.1 + 18195 0.66 0.917725
Target:  5'- gGAGCCGGGcaagguggGCGACGcggACuggaucgagcugucgUCGGCuGGGCg -3'
miRNA:   3'- aCUUGGCCU--------UGUUGU---UG---------------AGCCG-CCUG- -5'
19504 3' -52.3 NC_004685.1 + 40296 0.66 0.915234
Target:  5'- --cGCCGGAaaGCAGCAuC-CGGCcGACg -3'
miRNA:   3'- acuUGGCCU--UGUUGUuGaGCCGcCUG- -5'
19504 3' -52.3 NC_004685.1 + 58356 0.66 0.915234
Target:  5'- gGGucGCCGGucgcGCAcggcccauccACGACUCccgcaGGCGGGCg -3'
miRNA:   3'- aCU--UGGCCu---UGU----------UGUUGAG-----CCGCCUG- -5'
19504 3' -52.3 NC_004685.1 + 15921 0.66 0.915234
Target:  5'- cUGuuCUGGGACuucCAGCUCGGCGa-- -3'
miRNA:   3'- -ACuuGGCCUUGuu-GUUGAGCCGCcug -5'
19504 3' -52.3 NC_004685.1 + 11281 0.66 0.914604
Target:  5'- cUGAACCGGAcgauggGCGACAAgaUCGcccgccuGCGGGa -3'
miRNA:   3'- -ACUUGGCCU------UGUUGUUg-AGC-------CGCCUg -5'
19504 3' -52.3 NC_004685.1 + 32190 0.66 0.913972
Target:  5'- gGAGCCGuacgcgggcuacGGCGGCGGCUUcaaGGUGGGCg -3'
miRNA:   3'- aCUUGGCc-----------UUGUUGUUGAG---CCGCCUG- -5'
19504 3' -52.3 NC_004685.1 + 56619 0.66 0.908812
Target:  5'- gGAGCCGGggUAGCugggaUUGGCGu-- -3'
miRNA:   3'- aCUUGGCCuuGUUGuug--AGCCGCcug -5'
19504 3' -52.3 NC_004685.1 + 38156 0.66 0.908812
Target:  5'- --cACCGGGGC--CAACUCGcUGGGCa -3'
miRNA:   3'- acuUGGCCUUGuuGUUGAGCcGCCUG- -5'
19504 3' -52.3 NC_004685.1 + 10024 0.66 0.908812
Target:  5'- cGAGCUGGGugcuggcCAACAACUUGG-GGcCg -3'
miRNA:   3'- aCUUGGCCUu------GUUGUUGAGCCgCCuG- -5'
19504 3' -52.3 NC_004685.1 + 4019 0.66 0.902117
Target:  5'- cGGGCUGGccuuCGcGCGGCUCGGguuCGGGCa -3'
miRNA:   3'- aCUUGGCCuu--GU-UGUUGAGCC---GCCUG- -5'
19504 3' -52.3 NC_004685.1 + 37864 0.66 0.902117
Target:  5'- gGcgUCGGAGCGuCAGCcagccgcgUCGGCGaGACg -3'
miRNA:   3'- aCuuGGCCUUGUuGUUG--------AGCCGC-CUG- -5'
19504 3' -52.3 NC_004685.1 + 6555 0.66 0.901432
Target:  5'- cUGAucCUGGAgguGCuGGCAGCUCGGCaccggcuGGGCg -3'
miRNA:   3'- -ACUu-GGCCU---UG-UUGUUGAGCCG-------CCUG- -5'
19504 3' -52.3 NC_004685.1 + 1840 0.66 0.900055
Target:  5'- cGAccAUCGGGACGGugacCAGCUCGGCuucggccagguugaGGAUg -3'
miRNA:   3'- aCU--UGGCCUUGUU----GUUGAGCCG--------------CCUG- -5'
19504 3' -52.3 NC_004685.1 + 56369 0.66 0.895149
Target:  5'- aGAcuCCGcGGcgGCGGCAACgcCGGUGGACu -3'
miRNA:   3'- aCUu-GGC-CU--UGUUGUUGa-GCCGCCUG- -5'
19504 3' -52.3 NC_004685.1 + 20333 0.66 0.893006
Target:  5'- cGGGCCGGAcgGCGGCGgcgaaccgcugcccGCcgCGGCGuGAUc -3'
miRNA:   3'- aCUUGGCCU--UGUUGU--------------UGa-GCCGC-CUG- -5'
19504 3' -52.3 NC_004685.1 + 35636 0.66 0.887914
Target:  5'- aGGGCUGGcAGC-ACAucaUCGGCGGuCg -3'
miRNA:   3'- aCUUGGCC-UUGuUGUug-AGCCGCCuG- -5'
19504 3' -52.3 NC_004685.1 + 61364 0.66 0.887914
Target:  5'- cGuAGCCGGug-AACccGCUCGGCGGGg -3'
miRNA:   3'- aC-UUGGCCuugUUGu-UGAGCCGCCUg -5'
19504 3' -52.3 NC_004685.1 + 25079 0.66 0.886435
Target:  5'- cUGGACCGacaucaaGGGCGACAGCUaGGCucagccuGGGCa -3'
miRNA:   3'- -ACUUGGC-------CUUGUUGUUGAgCCG-------CCUG- -5'
19504 3' -52.3 NC_004685.1 + 1357 0.67 0.880416
Target:  5'- cGGAcCCGGGGCGcacGCAcACUCGGacccgcacacuCGGACc -3'
miRNA:   3'- aCUU-GGCCUUGU---UGU-UGAGCC-----------GCCUG- -5'
19504 3' -52.3 NC_004685.1 + 33216 0.67 0.87266
Target:  5'- ---cCCGGu-CGACAagcuGCUCGGCGG-Ca -3'
miRNA:   3'- acuuGGCCuuGUUGU----UGAGCCGCCuG- -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.