miRNA display CGI


Results 1 - 17 of 17 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
2268 5' -62 NC_001405.1 + 11390 0.66 0.237621
Target:  5'- -uGCGGCaUGGCCUgaaccGCGaGCGGuugcuGCGCg -3'
miRNA:   3'- uuCGUCG-ACCGGAa----CGC-CGUCc----CGCG- -5'
2268 5' -62 NC_001405.1 + 27504 0.66 0.225363
Target:  5'- -cGCAGCUuGCgg-GCGGCuuucgucacAGGGUGCg -3'
miRNA:   3'- uuCGUCGAcCGgaaCGCCG---------UCCCGCG- -5'
2268 5' -62 NC_001405.1 + 25003 0.66 0.213645
Target:  5'- -cGCAGUUGGCgaUGa-GCAGcuGGCGCg -3'
miRNA:   3'- uuCGUCGACCGgaACgcCGUC--CCGCG- -5'
2268 5' -62 NC_001405.1 + 10336 0.66 0.213645
Target:  5'- cGGCGGC-GGCUg-GCGGUAGaGGgGCc -3'
miRNA:   3'- uUCGUCGaCCGGaaCGCCGUC-CCgCG- -5'
2268 5' -62 NC_001405.1 + 5464 0.67 0.210233
Target:  5'- -cGCGGCgUGGCCcuugGCGcGCAGcuugcccuuggaggaGGCGCc -3'
miRNA:   3'- uuCGUCG-ACCGGaa--CGC-CGUC---------------CCGCG- -5'
2268 5' -62 NC_001405.1 + 9080 0.67 0.206312
Target:  5'- -cGCAGgUGGUCaUGCGcGCccgcgaugccgaagGGGGCGUg -3'
miRNA:   3'- uuCGUCgACCGGaACGC-CG--------------UCCCGCG- -5'
2268 5' -62 NC_001405.1 + 12159 0.67 0.202454
Target:  5'- gAGGCAGCUggGGCCggaccuggGCuGGCGGuGGCa- -3'
miRNA:   3'- -UUCGUCGA--CCGGaa------CG-CCGUC-CCGcg -5'
2268 5' -62 NC_001405.1 + 15861 0.67 0.193871
Target:  5'- -cGCGGCgagacuaugcccagGGCCUUGUaaacguaggGGCAGGuGCGg -3'
miRNA:   3'- uuCGUCGa-------------CCGGAACG---------CCGUCC-CGCg -5'
2268 5' -62 NC_001405.1 + 22792 0.68 0.176686
Target:  5'- aGAGCGuGCUGGCCa-GCGuGCAccacccGGCGCu -3'
miRNA:   3'- -UUCGU-CGACCGGaaCGC-CGUc-----CCGCG- -5'
2268 5' -62 NC_001405.1 + 2170 0.68 0.171895
Target:  5'- cAGGCGGC-GGCg--GCGGCAGGaGCa- -3'
miRNA:   3'- -UUCGUCGaCCGgaaCGCCGUCC-CGcg -5'
2268 5' -62 NC_001405.1 + 11215 0.69 0.149646
Target:  5'- gAGGagGGCgagGGCCUggcGCGGCuAGGaGCGCc -3'
miRNA:   3'- -UUCg-UCGa--CCGGAa--CGCCG-UCC-CGCG- -5'
2268 5' -62 NC_001405.1 + 26230 0.7 0.126423
Target:  5'- -cGCGGCUgcugauagGGCUgcgGCGGCGGGGgGa -3'
miRNA:   3'- uuCGUCGA--------CCGGaa-CGCCGUCCCgCg -5'
2268 5' -62 NC_001405.1 + 3838 0.7 0.122892
Target:  5'- -uGCAGC-GGCUgaagcgGCGGCGGaGGCuGCa -3'
miRNA:   3'- uuCGUCGaCCGGaa----CGCCGUC-CCG-CG- -5'
2268 5' -62 NC_001405.1 + 16244 0.7 0.122892
Target:  5'- uGGGCGGCaGuGCCgggucgGCGGCGGuGGCGa -3'
miRNA:   3'- -UUCGUCGaC-CGGaa----CGCCGUC-CCGCg -5'
2268 5' -62 NC_001405.1 + 15055 0.71 0.09231
Target:  5'- cAGGCGGC-GGCaacaacaGUGGCAGcGGCGCg -3'
miRNA:   3'- -UUCGUCGaCCGgaa----CGCCGUC-CCGCG- -5'
2268 5' -62 NC_001405.1 + 9560 0.73 0.069039
Target:  5'- uGGCGGggGGCUgccgUGCGGCAGGGauacgGCg -3'
miRNA:   3'- uUCGUCgaCCGGa---ACGCCGUCCCg----CG- -5'
2268 5' -62 NC_001405.1 + 24656 1.08 0.000097
Target:  5'- cAAGCAGCUGGCCUUGCGGCAGGGCGCu -3'
miRNA:   3'- -UUCGUCGACCGGAACGCCGUCCCGCG- -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.