miRNA display CGI


Results 1 - 20 of 32 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
2876 3' -55.1 NC_001493.1 + 103213 0.67 0.860573
Target:  5'- --gCUCGUCCGGugcucCGUCGGGAccgguucGGACc -3'
miRNA:   3'- uugGAGCAGGCCua---GUAGCUCU-------CCUG- -5'
2876 3' -55.1 NC_001493.1 + 121546 1.08 0.003386
Target:  5'- gAACCUCGUCCGGAUCAUCGAGAGGACg -3'
miRNA:   3'- -UUGGAGCAGGCCUAGUAGCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 6077 1.08 0.003386
Target:  5'- gAACCUCGUCCGGAUCAUCGAGAGGACg -3'
miRNA:   3'- -UUGGAGCAGGCCUAGUAGCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 5992 1.08 0.003386
Target:  5'- gAACCUCGUCCGGAUCAUCGAGAGGACg -3'
miRNA:   3'- -UUGGAGCAGGCCUAGUAGCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 121432 1.07 0.004012
Target:  5'- gAACCUCGUCCGGAUCAUCGAGAGGGCg -3'
miRNA:   3'- -UUGGAGCAGGCCUAGUAGCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 5878 1.07 0.004012
Target:  5'- gAACCUCGUCCGGAUCAUCGAGAGGGCg -3'
miRNA:   3'- -UUGGAGCAGGCCUAGUAGCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 57796 0.71 0.684649
Target:  5'- -cCCUCGggaucacCCGGuUCAguaUCGAGGGGGCg -3'
miRNA:   3'- uuGGAGCa------GGCCuAGU---AGCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 101161 0.69 0.763826
Target:  5'- -cCCUUuUCaCGGcgcuacuGUCAUCGAGGGGACg -3'
miRNA:   3'- uuGGAGcAG-GCC-------UAGUAGCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 61960 0.69 0.774361
Target:  5'- aAACUUUGUCUccaccgGGAUCAUCGAuagugacuucaGGGGGCa -3'
miRNA:   3'- -UUGGAGCAGG------CCUAGUAGCU-----------CUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 121631 1.08 0.003386
Target:  5'- gAACCUCGUCCGGAUCAUCGAGAGGACg -3'
miRNA:   3'- -UUGGAGCAGGCCUAGUAGCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 3690 0.66 0.903811
Target:  5'- -uUCUCGaCCGG-UCGUgGAGAuGGACu -3'
miRNA:   3'- uuGGAGCaGGCCuAGUAgCUCU-CCUG- -5'
2876 3' -55.1 NC_001493.1 + 119245 0.66 0.903811
Target:  5'- -uUCUCGaCCGG-UCGUgGAGAuGGACu -3'
miRNA:   3'- uuGGAGCaGGCCuAGUAgCUCU-CCUG- -5'
2876 3' -55.1 NC_001493.1 + 49807 0.67 0.868994
Target:  5'- -cCCgacCGUCCGGuUCGauaaaugCGAGGGGACc -3'
miRNA:   3'- uuGGa--GCAGGCCuAGUa------GCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 57469 0.66 0.904447
Target:  5'- gGACCgguccgaaaaugguaUGUCCGGGcaUCAUCgccucaguGAGAGGACu -3'
miRNA:   3'- -UUGGa--------------GCAGGCCU--AGUAG--------CUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 126860 0.66 0.890584
Target:  5'- cGCCUCGg--GGGUCAUCGAGcccuggucccGGGAg -3'
miRNA:   3'- uUGGAGCaggCCUAGUAGCUC----------UCCUg -5'
2876 3' -55.1 NC_001493.1 + 11214 0.66 0.897317
Target:  5'- gAGCgUcCGUCCcacGGGUCGUCGAGcccucGGGAUg -3'
miRNA:   3'- -UUGgA-GCAGG---CCUAGUAGCUC-----UCCUG- -5'
2876 3' -55.1 NC_001493.1 + 124369 0.66 0.921833
Target:  5'- uGGCC-CGUCCGuGuccgcaccccucGUCAUuggCGAGGGGGCg -3'
miRNA:   3'- -UUGGaGCAGGC-C------------UAGUA---GCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 8815 0.66 0.921833
Target:  5'- uGGCC-CGUCCGuGuccgcaccccucGUCAUuggCGAGGGGGCg -3'
miRNA:   3'- -UUGGaGCAGGC-C------------UAGUA---GCUCUCCUG- -5'
2876 3' -55.1 NC_001493.1 + 11306 0.66 0.890584
Target:  5'- cGCCUCGg--GGGUCAUCGAGcccuggucccGGGAg -3'
miRNA:   3'- uUGGAGCaggCCUAGUAGCUC----------UCCUg -5'
2876 3' -55.1 NC_001493.1 + 126768 0.66 0.897317
Target:  5'- gAGCgUcCGUCCcacGGGUCGUCGAGcccucGGGAUg -3'
miRNA:   3'- -UUGgA-GCAGG---CCUAGUAGCUC-----UCCUG- -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.