miRNA display CGI


Results 1 - 20 of 47 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
1355 3' -63.6 NC_001335.1 + 17542 0.71 0.13005
Target:  5'- uGGCc-AUCGGCCuGCAGGCCGGUa- -3'
miRNA:   3'- gCCGucUGGCCGGuCGUCUGGCCGgu -5'
1355 3' -63.6 NC_001335.1 + 28944 0.67 0.247076
Target:  5'- cCGGCAGccGCCGGCCcaucGCGuuGACgauguagccguugCGGCCAg -3'
miRNA:   3'- -GCCGUC--UGGCCGGu---CGU--CUG-------------GCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 24928 0.67 0.260174
Target:  5'- aGGCAuGCCGGCgGGCAGuCgGGgCu -3'
miRNA:   3'- gCCGUcUGGCCGgUCGUCuGgCCgGu -5'
1355 3' -63.6 NC_001335.1 + 31800 0.66 0.307926
Target:  5'- gCGGCAagccCCGGUCAGCcaGCCGGUUg -3'
miRNA:   3'- -GCCGUcu--GGCCGGUCGucUGGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 47446 0.7 0.152423
Target:  5'- --uCAGGuuGGCCAGCAGugCauuGGCCAc -3'
miRNA:   3'- gccGUCUggCCGGUCGUCugG---CCGGU- -5'
1355 3' -63.6 NC_001335.1 + 13196 0.69 0.173678
Target:  5'- -aGCGGACCaGGCCgucgaauaccGGCAucCCGGCCAu -3'
miRNA:   3'- gcCGUCUGG-CCGG----------UCGUcuGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 11513 0.76 0.054306
Target:  5'- gGGCAcGACCGGCCAGaagaucccgcacUGGACCGGCg- -3'
miRNA:   3'- gCCGU-CUGGCCGGUC------------GUCUGGCCGgu -5'
1355 3' -63.6 NC_001335.1 + 16202 0.73 0.089158
Target:  5'- uCGGCAucguGGCCGGUCuGCuGGCCGGUCu -3'
miRNA:   3'- -GCCGU----CUGGCCGGuCGuCUGGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 295 0.72 0.110744
Target:  5'- aGGCgcucaucuaaAGACCGGCCuugaaGGGCCGGUCAu -3'
miRNA:   3'- gCCG----------UCUGGCCGGucg--UCUGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 48813 0.67 0.241631
Target:  5'- gCGGC-GACCGGaCgCGGUAGcuucuCCGGUCAg -3'
miRNA:   3'- -GCCGuCUGGCC-G-GUCGUCu----GGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 11374 0.69 0.182897
Target:  5'- uCGGCGugaacGACCccaaGGUCGcGCAGACCGGCg- -3'
miRNA:   3'- -GCCGU-----CUGG----CCGGU-CGUCUGGCCGgu -5'
1355 3' -63.6 NC_001335.1 + 2320 0.69 0.182897
Target:  5'- uCGGCaaggagugagcuGGGCCGGCU--CAGGCCGGCg- -3'
miRNA:   3'- -GCCG------------UCUGGCCGGucGUCUGGCCGgu -5'
1355 3' -63.6 NC_001335.1 + 31064 0.71 0.13005
Target:  5'- -uGCGGuuCGGCCGGCucGGGCCGGUCu -3'
miRNA:   3'- gcCGUCugGCCGGUCG--UCUGGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 38273 0.69 0.186704
Target:  5'- cCGGCuuaguuccgcucGGCCGGCCAGCccgcGACUcGCCAa -3'
miRNA:   3'- -GCCGu-----------CUGGCCGGUCGu---CUGGcCGGU- -5'
1355 3' -63.6 NC_001335.1 + 14618 0.71 0.14083
Target:  5'- uCGGUgugaAGACCGGCCAGaccaacgagaAGGCCGuGCUg -3'
miRNA:   3'- -GCCG----UCUGGCCGGUCg---------UCUGGC-CGGu -5'
1355 3' -63.6 NC_001335.1 + 4091 0.69 0.178234
Target:  5'- aGGCAG-CCGGCggcgaugcaaAGCAGcUCGGCCGc -3'
miRNA:   3'- gCCGUCuGGCCGg---------UCGUCuGGCCGGU- -5'
1355 3' -63.6 NC_001335.1 + 48293 0.67 0.238058
Target:  5'- gCGGCcGGCCGGCCGaaccacacccuuggcGUGGGCCagcaggacguGGCCGc -3'
miRNA:   3'- -GCCGuCUGGCCGGU---------------CGUCUGG----------CCGGU- -5'
1355 3' -63.6 NC_001335.1 + 21242 0.67 0.258903
Target:  5'- uGGCGGAUUGGUCAGagcacuuguggaAGugCGGCUu -3'
miRNA:   3'- gCCGUCUGGCCGGUCg-----------UCugGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 46496 0.7 0.144602
Target:  5'- cCGGCGGuagcucuugaGCUGGCCAGCGGugcucuUCGGCUu -3'
miRNA:   3'- -GCCGUC----------UGGCCGGUCGUCu-----GGCCGGu -5'
1355 3' -63.6 NC_001335.1 + 32145 0.69 0.173678
Target:  5'- cCGGUAGcaguuCCGGCCcGCGaACuCGGCCAg -3'
miRNA:   3'- -GCCGUCu----GGCCGGuCGUcUG-GCCGGU- -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.