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
21780 5' -54.9 NC_004813.1 + 46367 1.08 0.001115
Target:  5'- uAAAUCCGGAGAGCGGCAACAGCACGCc -3'
miRNA:   3'- -UUUAGGCCUCUCGCCGUUGUCGUGCG- -5'
21780 5' -54.9 NC_004813.1 + 44119 0.73 0.319404
Target:  5'- uGGUCCGG-GAGaCGGCGgACAGCACc- -3'
miRNA:   3'- uUUAGGCCuCUC-GCCGU-UGUCGUGcg -5'
21780 5' -54.9 NC_004813.1 + 29981 0.72 0.368739
Target:  5'- ---gCCGGAGGG-GGCGgaguuugGCAGUGCGCu -3'
miRNA:   3'- uuuaGGCCUCUCgCCGU-------UGUCGUGCG- -5'
21780 5' -54.9 NC_004813.1 + 47902 0.69 0.527152
Target:  5'- gAAAUCCGGAuGaAGCcgGGCGuuACAGCAUGg -3'
miRNA:   3'- -UUUAGGCCU-C-UCG--CCGU--UGUCGUGCg -5'
21780 5' -54.9 NC_004813.1 + 4947 0.69 0.537913
Target:  5'- -cAUCgGGAGAGCa--GGCGGUGCGCa -3'
miRNA:   3'- uuUAGgCCUCUCGccgUUGUCGUGCG- -5'
21780 5' -54.9 NC_004813.1 + 49621 0.68 0.592685
Target:  5'- gGGAUaCCGG-GGGCGGUGAUGGUggGCu -3'
miRNA:   3'- -UUUA-GGCCuCUCGCCGUUGUCGugCG- -5'
21780 5' -54.9 NC_004813.1 + 40875 0.67 0.626023
Target:  5'- ---gCCGGAG-GCGGCAGgCAGUcuugUGCa -3'
miRNA:   3'- uuuaGGCCUCuCGCCGUU-GUCGu---GCG- -5'
21780 5' -54.9 NC_004813.1 + 54253 0.67 0.626023
Target:  5'- uAAUCCuGGAGuGUaGCAuuguACAGCAUGCc -3'
miRNA:   3'- uUUAGG-CCUCuCGcCGU----UGUCGUGCG- -5'
21780 5' -54.9 NC_004813.1 + 38720 0.67 0.647179
Target:  5'- aAAGUaCCGGGcaaccccGA-CGGCAAcCAGCGCGCc -3'
miRNA:   3'- -UUUA-GGCCU-------CUcGCCGUU-GUCGUGCG- -5'
21780 5' -54.9 NC_004813.1 + 706 0.67 0.648291
Target:  5'- -cGUCaCGGGGAGCuGGUAuc-GCugGCa -3'
miRNA:   3'- uuUAG-GCCUCUCG-CCGUuguCGugCG- -5'
21780 5' -54.9 NC_004813.1 + 38595 0.67 0.659408
Target:  5'- ---gCCGGAcaGAuugagaauGUGGCAACAGCcguggGCGCg -3'
miRNA:   3'- uuuaGGCCU--CU--------CGCCGUUGUCG-----UGCG- -5'
21780 5' -54.9 NC_004813.1 + 24665 0.66 0.692559
Target:  5'- --uUCUGGGGuuCGGuCAGCGGCACu- -3'
miRNA:   3'- uuuAGGCCUCucGCC-GUUGUCGUGcg -5'
21780 5' -54.9 NC_004813.1 + 48736 0.66 0.702413
Target:  5'- aGGGUCCaaagGGAGAuaccgguGCGGCAGgccCGGCAgGCc -3'
miRNA:   3'- -UUUAGG----CCUCU-------CGCCGUU---GUCGUgCG- -5'
21780 5' -54.9 NC_004813.1 + 26807 0.66 0.71438
Target:  5'- ---gCCGG-GAGCuGGCAGCAGaCAUa- -3'
miRNA:   3'- uuuaGGCCuCUCG-CCGUUGUC-GUGcg -5'
21780 5' -54.9 NC_004813.1 + 21359 0.66 0.725171
Target:  5'- -cGUCCGGAcccGCGuauuaaGCAGCuGGCGCGCc -3'
miRNA:   3'- uuUAGGCCUcu-CGC------CGUUG-UCGUGCG- -5'
21780 5' -54.9 NC_004813.1 + 26218 0.66 0.725171
Target:  5'- ---gCCGGAGGuGcCGGUGGCuuCACGCa -3'
miRNA:   3'- uuuaGGCCUCU-C-GCCGUUGucGUGCG- -5'
21780 5' -54.9 NC_004813.1 + 34527 0.66 0.735869
Target:  5'- uGGUCCGGcAGAGCaguGGCcAguGUACGg -3'
miRNA:   3'- uUUAGGCC-UCUCG---CCGuUguCGUGCg -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.