miRNA display CGI


Results 1 - 15 of 15 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
12118 3' -59.2 NC_003309.1 + 13099 0.66 0.542891
Target:  5'- cCCGGCugcGACaccacuGCGGCGCGgaccacgaacUCGCCGu -3'
miRNA:   3'- -GGCCGua-CUGcc----UGCCGCGU----------AGCGGU- -5'
12118 3' -59.2 NC_003309.1 + 9405 0.66 0.542891
Target:  5'- aCCGcGCAUGcgGCGGucguauuCGGuCGUAuUCGCCGu -3'
miRNA:   3'- -GGC-CGUAC--UGCCu------GCC-GCGU-AGCGGU- -5'
12118 3' -59.2 NC_003309.1 + 11757 0.66 0.541855
Target:  5'- cCCGGCGaucagccccgccaUG-CGGACcuGCGCGUCGUUc -3'
miRNA:   3'- -GGCCGU-------------ACuGCCUGc-CGCGUAGCGGu -5'
12118 3' -59.2 NC_003309.1 + 43563 0.66 0.532554
Target:  5'- aCGGCGgcGACGuGACGaucgucugcacGCGCA-CGCCGu -3'
miRNA:   3'- gGCCGUa-CUGC-CUGC-----------CGCGUaGCGGU- -5'
12118 3' -59.2 NC_003309.1 + 11981 0.66 0.522288
Target:  5'- gCGGCAgccGCGG-CGcGCGCcgCGUCGg -3'
miRNA:   3'- gGCCGUac-UGCCuGC-CGCGuaGCGGU- -5'
12118 3' -59.2 NC_003309.1 + 8534 0.66 0.512099
Target:  5'- gCCGGC--GGCGGcacgagcuuCGGCGCAcCGCUc -3'
miRNA:   3'- -GGCCGuaCUGCCu--------GCCGCGUaGCGGu -5'
12118 3' -59.2 NC_003309.1 + 37916 0.66 0.501993
Target:  5'- uUCGGCggGGCGGcccguAUGcGCGCccCGCCAu -3'
miRNA:   3'- -GGCCGuaCUGCC-----UGC-CGCGuaGCGGU- -5'
12118 3' -59.2 NC_003309.1 + 30178 0.67 0.456717
Target:  5'- aCUGGCGgaagagcgGAagaaacgcgaacgucCGGACGGCGCAggggauaugCGCCc -3'
miRNA:   3'- -GGCCGUa-------CU---------------GCCUGCCGCGUa--------GCGGu -5'
12118 3' -59.2 NC_003309.1 + 3569 0.67 0.452883
Target:  5'- aCUGGCGcccGACcgcguaGGCGGCGUAUCGCg- -3'
miRNA:   3'- -GGCCGUa--CUGc-----CUGCCGCGUAGCGgu -5'
12118 3' -59.2 NC_003309.1 + 31477 0.67 0.443376
Target:  5'- gCCGGCGgcgaaaGCGGccACGGCGCc-CGCCc -3'
miRNA:   3'- -GGCCGUac----UGCC--UGCCGCGuaGCGGu -5'
12118 3' -59.2 NC_003309.1 + 34750 0.68 0.405612
Target:  5'- gCGGaugaugaagcuCGUGuuGGACGGCuacacucgcaacgGCAUCGCCAc -3'
miRNA:   3'- gGCC-----------GUACugCCUGCCG-------------CGUAGCGGU- -5'
12118 3' -59.2 NC_003309.1 + 17788 0.71 0.279734
Target:  5'- uUCGGCGUGAU--ACGGCGCAcacggaUCaGCCAg -3'
miRNA:   3'- -GGCCGUACUGccUGCCGCGU------AG-CGGU- -5'
12118 3' -59.2 NC_003309.1 + 48038 0.71 0.253392
Target:  5'- aCCGGCGUGAagagUGGcCGGuCGagGUCGCCGg -3'
miRNA:   3'- -GGCCGUACU----GCCuGCC-GCg-UAGCGGU- -5'
12118 3' -59.2 NC_003309.1 + 11240 0.73 0.186471
Target:  5'- uCCGGUAc-GCGGACuGCGCGUCGUCu -3'
miRNA:   3'- -GGCCGUacUGCCUGcCGCGUAGCGGu -5'
12118 3' -59.2 NC_003309.1 + 11310 1.1 0.000406
Target:  5'- uCCGGCAUGACGGACGGCGCAUCGCCAa -3'
miRNA:   3'- -GGCCGUACUGCCUGCCGCGUAGCGGU- -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.