miRNA display CGI


Results 1 - 18 of 18 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
5237 3' -57.8 NC_001798.1 + 12184 0.66 0.842542
Target:  5'- cAGGUCCuCUUCCacgaagcccUGGGGCcccacggccccgGCAUCCAc -3'
miRNA:   3'- -UCCAGGuGGAGGa--------ACCUCG------------CGUAGGU- -5'
5237 3' -57.8 NC_001798.1 + 146993 0.66 0.834392
Target:  5'- aGGGUCCGCCUCUUgccucggGGAcccccGgGCGggCCGg -3'
miRNA:   3'- -UCCAGGUGGAGGAa------CCU-----CgCGUa-GGU- -5'
5237 3' -57.8 NC_001798.1 + 23647 0.66 0.834392
Target:  5'- cGGG-CCGCC----UGGAGCGCcgCCGg -3'
miRNA:   3'- -UCCaGGUGGaggaACCUCGCGuaGGU- -5'
5237 3' -57.8 NC_001798.1 + 95901 0.66 0.817554
Target:  5'- cGGGcUCuCGCCUCCUugUGGuGGCGaGUCCu -3'
miRNA:   3'- -UCC-AG-GUGGAGGA--ACC-UCGCgUAGGu -5'
5237 3' -57.8 NC_001798.1 + 91112 0.67 0.791067
Target:  5'- cGGUgCgCugCUCCgcgGGGGCGUccucGUCCAg -3'
miRNA:   3'- uCCA-G-GugGAGGaa-CCUCGCG----UAGGU- -5'
5237 3' -57.8 NC_001798.1 + 81415 0.67 0.781943
Target:  5'- uGGaUCCACggCCUggaGGAGCugGCGUCCGa -3'
miRNA:   3'- uCC-AGGUGgaGGAa--CCUCG--CGUAGGU- -5'
5237 3' -57.8 NC_001798.1 + 34990 0.67 0.781943
Target:  5'- gGGGgCC-CCUCCggccGGGGCGCA-CCu -3'
miRNA:   3'- -UCCaGGuGGAGGaa--CCUCGCGUaGGu -5'
5237 3' -57.8 NC_001798.1 + 43116 0.67 0.781943
Target:  5'- cGGU-CGCUUCCggcgGGcGCGCGUCCc -3'
miRNA:   3'- uCCAgGUGGAGGaa--CCuCGCGUAGGu -5'
5237 3' -57.8 NC_001798.1 + 88973 0.67 0.781943
Target:  5'- gAGGaCgGCCUCCUcgGGGGUGCucugggggAUCCGc -3'
miRNA:   3'- -UCCaGgUGGAGGAa-CCUCGCG--------UAGGU- -5'
5237 3' -57.8 NC_001798.1 + 138153 0.67 0.781943
Target:  5'- cGGUCgCGCCcccgggUCCUgGGGGCGCGaCCc -3'
miRNA:   3'- uCCAG-GUGG------AGGAaCCUCGCGUaGGu -5'
5237 3' -57.8 NC_001798.1 + 128416 0.67 0.772686
Target:  5'- cGGGgccugacgaCCGCCUCCacgcugcggUGGGGCGCgcaggGUCCGu -3'
miRNA:   3'- -UCCa--------GGUGGAGGa--------ACCUCGCG-----UAGGU- -5'
5237 3' -57.8 NC_001798.1 + 62274 0.68 0.694919
Target:  5'- cAGGcCCGCCgggcggcCCggcgGGAGCGCG-CCAa -3'
miRNA:   3'- -UCCaGGUGGa------GGaa--CCUCGCGUaGGU- -5'
5237 3' -57.8 NC_001798.1 + 52171 0.69 0.634149
Target:  5'- gAGG-CCGCgUUUgcGGGGCGCGUCCu -3'
miRNA:   3'- -UCCaGGUGgAGGaaCCUCGCGUAGGu -5'
5237 3' -57.8 NC_001798.1 + 77968 0.7 0.60363
Target:  5'- --aUCCACCgCCUcggcUGGAGCGCGgcguUCCAc -3'
miRNA:   3'- uccAGGUGGaGGA----ACCUCGCGU----AGGU- -5'
5237 3' -57.8 NC_001798.1 + 71897 0.72 0.494653
Target:  5'- aAGaUCCGCUUCCcggcccUGGAGgGCAUCCAc -3'
miRNA:   3'- -UCcAGGUGGAGGa-----ACCUCgCGUAGGU- -5'
5237 3' -57.8 NC_001798.1 + 89130 0.73 0.457182
Target:  5'- cGGUCCGCCUCCa-GGuGCGCGacggCCu -3'
miRNA:   3'- uCCAGGUGGAGGaaCCuCGCGUa---GGu -5'
5237 3' -57.8 NC_001798.1 + 96669 0.73 0.421287
Target:  5'- cGGcgCCACggCCgcgcUGGAGCGCGUCCGg -3'
miRNA:   3'- uCCa-GGUGgaGGa---ACCUCGCGUAGGU- -5'
5237 3' -57.8 NC_001798.1 + 66284 1.08 0.002096
Target:  5'- cAGGUCCACCUCCUUGGAGCGCAUCCAu -3'
miRNA:   3'- -UCCAGGUGGAGGAACCUCGCGUAGGU- -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.