miRNA display CGI


Results 1 - 20 of 53 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
3799 3' -58.8 NC_001650.1 + 161788 0.66 0.832934
Target:  5'- gAGGGuGGGCGCgcccgagcacCUcUGggccagCAUGuGGGACu -3'
miRNA:   3'- -UCCC-CCCGCG----------GAaACa-----GUACuCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 51671 0.66 0.832934
Target:  5'- cGGGGGcGCGUCg----CccGGGGGGCg -3'
miRNA:   3'- uCCCCC-CGCGGaaacaGuaCUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 5600 0.66 0.816327
Target:  5'- uGGGGGuauaGGUGCauggggGUCAUGGGGGuAUa -3'
miRNA:   3'- -UCCCC----CCGCGgaaa--CAGUACUCCC-UG- -5'
3799 3' -58.8 NC_001650.1 + 182785 0.66 0.816327
Target:  5'- cGGGGGGCcgGCCUUgugGU-GUGAGGu-- -3'
miRNA:   3'- uCCCCCCG--CGGAAa--CAgUACUCCcug -5'
3799 3' -58.8 NC_001650.1 + 172307 0.66 0.816327
Target:  5'- uGGGGGuauaGGUGCauggggGUCAUGGGGGuAUa -3'
miRNA:   3'- -UCCCC----CCGCGgaaa--CAGUACUCCC-UG- -5'
3799 3' -58.8 NC_001650.1 + 16078 0.66 0.816327
Target:  5'- cGGGGGGCcgGCCUUgugGU-GUGAGGu-- -3'
miRNA:   3'- uCCCCCCG--CGGAAa--CAgUACUCCcug -5'
3799 3' -58.8 NC_001650.1 + 166243 0.66 0.80778
Target:  5'- uGGGGGGCGCuCUUcuUCAcccccGGGGGuGCc -3'
miRNA:   3'- uCCCCCCGCG-GAAacAGUa----CUCCC-UG- -5'
3799 3' -58.8 NC_001650.1 + 59884 0.66 0.79908
Target:  5'- cGGGGGucGCGCCcgUGUUG-GGGaGGACu -3'
miRNA:   3'- uCCCCC--CGCGGaaACAGUaCUC-CCUG- -5'
3799 3' -58.8 NC_001650.1 + 17446 0.67 0.790236
Target:  5'- cGGGGGGGUuuguggggcuGCCUggG--AUGAGGGGu -3'
miRNA:   3'- -UCCCCCCG----------CGGAaaCagUACUCCCUg -5'
3799 3' -58.8 NC_001650.1 + 143060 0.67 0.790236
Target:  5'- cGGaGGGCGCCgagGcgcuccgccugcUCAaGAGGGACa -3'
miRNA:   3'- uCCcCCCGCGGaaaC------------AGUaCUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 184153 0.67 0.790236
Target:  5'- cGGGGGGGUuuguggggcuGCCUggG--AUGAGGGGu -3'
miRNA:   3'- -UCCCCCCG----------CGGAaaCagUACUCCCUg -5'
3799 3' -58.8 NC_001650.1 + 175403 0.67 0.772147
Target:  5'- -aGGGGGCGCgCg----CggGAGGGGCa -3'
miRNA:   3'- ucCCCCCGCG-GaaacaGuaCUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 38459 0.67 0.772147
Target:  5'- gGGaGGGGGCGCCU-----GUGAG-GACa -3'
miRNA:   3'- -UC-CCCCCGCGGAaacagUACUCcCUG- -5'
3799 3' -58.8 NC_001650.1 + 8696 0.67 0.772147
Target:  5'- -aGGGGGCGCgCg----CggGAGGGGCa -3'
miRNA:   3'- ucCCCCCGCG-GaaacaGuaCUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 35172 0.67 0.76292
Target:  5'- cGGGGGuGGUGCCccacaccagcacccUGgacccggugugcuUCGUGGGGGACa -3'
miRNA:   3'- -UCCCC-CCGCGGaa------------AC-------------AGUACUCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 127569 0.67 0.76292
Target:  5'- gAGGGGGGCGaCCgcccaggGcCAggGGGuGGACu -3'
miRNA:   3'- -UCCCCCCGC-GGaaa----CaGUa-CUC-CCUG- -5'
3799 3' -58.8 NC_001650.1 + 89701 0.67 0.753581
Target:  5'- gAGGGGGGCGCgcagGUCAUGu--GAUa -3'
miRNA:   3'- -UCCCCCCGCGgaaaCAGUACuccCUG- -5'
3799 3' -58.8 NC_001650.1 + 68830 0.67 0.74414
Target:  5'- gGGGcGGGGCGCCUcg-----GAcGGGACg -3'
miRNA:   3'- -UCC-CCCCGCGGAaacaguaCU-CCCUG- -5'
3799 3' -58.8 NC_001650.1 + 28237 0.67 0.74414
Target:  5'- cAGGGGGGC-UCg--GUgGUGuucAGGGACa -3'
miRNA:   3'- -UCCCCCCGcGGaaaCAgUAC---UCCCUG- -5'
3799 3' -58.8 NC_001650.1 + 91034 0.67 0.74414
Target:  5'- cAGGGGGGUGaCC---GUCuUG-GGGGCg -3'
miRNA:   3'- -UCCCCCCGC-GGaaaCAGuACuCCCUG- -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.