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
10818 3' -54.7 NC_002794.1 + 53294 0.66 0.96207
Target:  5'- aCUCCAGGUgcCGAGCggUCGGccGGCGccGCGAg -3'
miRNA:   3'- -GAGGUCUA--GCUCG--AGCU--CCGCa-UGUU- -5'
10818 3' -54.7 NC_002794.1 + 154812 0.66 0.954709
Target:  5'- -aUCAGAUCGGGgUCGuucaAGGCGUccGCGg -3'
miRNA:   3'- gaGGUCUAGCUCgAGC----UCCGCA--UGUu -5'
10818 3' -54.7 NC_002794.1 + 111435 0.66 0.950689
Target:  5'- -gCCAGAUCG-GCagUCGGGGCGg---- -3'
miRNA:   3'- gaGGUCUAGCuCG--AGCUCCGCauguu -5'
10818 3' -54.7 NC_002794.1 + 145485 0.66 0.946437
Target:  5'- -gCCgaGGAUcgCGAGgaUGAGGCGUGCGAa -3'
miRNA:   3'- gaGG--UCUA--GCUCgaGCUCCGCAUGUU- -5'
10818 3' -54.7 NC_002794.1 + 152667 0.66 0.946437
Target:  5'- gCUCgAGcaguaucgCGAGCUgGGGGUGUGCGc -3'
miRNA:   3'- -GAGgUCua------GCUCGAgCUCCGCAUGUu -5'
10818 3' -54.7 NC_002794.1 + 119111 0.67 0.941489
Target:  5'- gUCCAGAUCGGGgaCGcagaaggccuggcAGGCGUuCGGg -3'
miRNA:   3'- gAGGUCUAGCUCgaGC-------------UCCGCAuGUU- -5'
10818 3' -54.7 NC_002794.1 + 95040 0.67 0.932266
Target:  5'- -gCCGGuggCGGcGCcCGAGGCGUACGu -3'
miRNA:   3'- gaGGUCua-GCU-CGaGCUCCGCAUGUu -5'
10818 3' -54.7 NC_002794.1 + 103785 0.67 0.927065
Target:  5'- uCUCCGGcggcUGAGCUUGAGGUGcgccUGCGAc -3'
miRNA:   3'- -GAGGUCua--GCUCGAGCUCCGC----AUGUU- -5'
10818 3' -54.7 NC_002794.1 + 180642 0.69 0.862129
Target:  5'- gCUCCAGAcgaCGAGCcagCGcaGGGCGUGCc- -3'
miRNA:   3'- -GAGGUCUa--GCUCGa--GC--UCCGCAUGuu -5'
10818 3' -54.7 NC_002794.1 + 23458 0.69 0.846497
Target:  5'- gUCCGGAUCGAcgUCGGGGCGg---- -3'
miRNA:   3'- gAGGUCUAGCUcgAGCUCCGCauguu -5'
10818 3' -54.7 NC_002794.1 + 117537 0.7 0.795154
Target:  5'- gCUCCAGGUUGccgugcagcAGCUCGAgccGGuCGUGCAGc -3'
miRNA:   3'- -GAGGUCUAGC---------UCGAGCU---CC-GCAUGUU- -5'
10818 3' -54.7 NC_002794.1 + 97573 0.71 0.757867
Target:  5'- gCUCCGGGUUGGuGgUCGAGGCGUccccguucuACGAu -3'
miRNA:   3'- -GAGGUCUAGCU-CgAGCUCCGCA---------UGUU- -5'
10818 3' -54.7 NC_002794.1 + 103749 0.72 0.728699
Target:  5'- gCUCCAGGUcCGGGUacuccUCGAagauGGCGUGCAu -3'
miRNA:   3'- -GAGGUCUA-GCUCG-----AGCU----CCGCAUGUu -5'
10818 3' -54.7 NC_002794.1 + 113919 0.75 0.566239
Target:  5'- cCUCCAGGUCGGccGC-CGAGGCG-ACGGg -3'
miRNA:   3'- -GAGGUCUAGCU--CGaGCUCCGCaUGUU- -5'
10818 3' -54.7 NC_002794.1 + 152919 0.76 0.497038
Target:  5'- gUCCGGAUCGAgGCcCG-GGCGUACAu -3'
miRNA:   3'- gAGGUCUAGCU-CGaGCuCCGCAUGUu -5'
10818 3' -54.7 NC_002794.1 + 79942 0.76 0.468539
Target:  5'- cCUCCuGGccuacugCGAGCUCGuGGCGUACGAc -3'
miRNA:   3'- -GAGGuCUa------GCUCGAGCuCCGCAUGUU- -5'
10818 3' -54.7 NC_002794.1 + 64527 1.06 0.007093
Target:  5'- cCUCCAGAUCGAGCUCGAGGCGUACAAc -3'
miRNA:   3'- -GAGGUCUAGCUCGAGCUCCGCAUGUU- -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.