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
8331 5' -54.6 NC_002067.1 + 15505 0.66 0.657502
Target:  5'- aCGGAGgcgCCgUCGaCGCGCAGguCGUu -3'
miRNA:   3'- aGCUUUa--GG-AGCaGCGCGUCguGCGc -5'
8331 5' -54.6 NC_002067.1 + 4707 0.66 0.634812
Target:  5'- aUCGAGGagCUCcUUG-GCGGCACGCu -3'
miRNA:   3'- -AGCUUUagGAGcAGCgCGUCGUGCGc -5'
8331 5' -54.6 NC_002067.1 + 25336 0.66 0.627999
Target:  5'- cCGAGcgCgUCGUCGCcgaccuggcgcucguGCAGC-CGCu -3'
miRNA:   3'- aGCUUuaGgAGCAGCG---------------CGUCGuGCGc -5'
8331 5' -54.6 NC_002067.1 + 23306 0.67 0.605312
Target:  5'- uUCGAAGggCUCGgucgggacgagacgCGCGCGGCgaaACGCu -3'
miRNA:   3'- -AGCUUUagGAGCa-------------GCGCGUCG---UGCGc -5'
8331 5' -54.6 NC_002067.1 + 5256 0.67 0.589485
Target:  5'- gUUGAGggCCUCGgcgGCGUGGCccuugGCGCGg -3'
miRNA:   3'- -AGCUUuaGGAGCag-CGCGUCG-----UGCGC- -5'
8331 5' -54.6 NC_002067.1 + 23449 0.67 0.589485
Target:  5'- gUCGAAGuangacUCCUCGcCGC-CGGCgGCGCc -3'
miRNA:   3'- -AGCUUU------AGGAGCaGCGcGUCG-UGCGc -5'
8331 5' -54.6 NC_002067.1 + 3600 0.67 0.586102
Target:  5'- gUGggGaaCUCGUCGCuugacagcaccgccGCAGC-CGCGg -3'
miRNA:   3'- aGCuuUagGAGCAGCG--------------CGUCGuGCGC- -5'
8331 5' -54.6 NC_002067.1 + 8745 0.67 0.555854
Target:  5'- aCGuccccGUCggCGUCGCGC-GCGCGCa -3'
miRNA:   3'- aGCuu---UAGgaGCAGCGCGuCGUGCGc -5'
8331 5' -54.6 NC_002067.1 + 15408 0.67 0.544761
Target:  5'- gUCGuuggUgUCGUUGCGCAGCAUGg- -3'
miRNA:   3'- -AGCuuuaGgAGCAGCGCGUCGUGCgc -5'
8331 5' -54.6 NC_002067.1 + 31388 0.68 0.532643
Target:  5'- cUCGAGGccagUCUCGUCGCugucauggcggcuGCGGCugcCGCGg -3'
miRNA:   3'- -AGCUUUa---GGAGCAGCG-------------CGUCGu--GCGC- -5'
8331 5' -54.6 NC_002067.1 + 26247 0.69 0.459223
Target:  5'- aCGccGUCU---UCGCGCGGCACGUGg -3'
miRNA:   3'- aGCuuUAGGagcAGCGCGUCGUGCGC- -5'
8331 5' -54.6 NC_002067.1 + 21839 0.69 0.449023
Target:  5'- cCGgcAUCCUgcaCGCaGCAGCGCGCGu -3'
miRNA:   3'- aGCuuUAGGAgcaGCG-CGUCGUGCGC- -5'
8331 5' -54.6 NC_002067.1 + 9874 0.69 0.429008
Target:  5'- cUCGGAGUaCCUgaGcCGCGagaaGGCGCGCGa -3'
miRNA:   3'- -AGCUUUA-GGAg-CaGCGCg---UCGUGCGC- -5'
8331 5' -54.6 NC_002067.1 + 26386 0.7 0.403791
Target:  5'- cUCGAAugaCCUCGccgccaccguggagCGCGCGGguCGCGg -3'
miRNA:   3'- -AGCUUua-GGAGCa-------------GCGCGUCguGCGC- -5'
8331 5' -54.6 NC_002067.1 + 10535 0.71 0.354523
Target:  5'- gCGugguAGUCCUCGgguacaaauUUGCGCAgGUACGCGg -3'
miRNA:   3'- aGCu---UUAGGAGC---------AGCGCGU-CGUGCGC- -5'
8331 5' -54.6 NC_002067.1 + 7117 0.71 0.345877
Target:  5'- cUUGAAAUCCgaGUCGuCGCAGC-CGCc -3'
miRNA:   3'- -AGCUUUAGGagCAGC-GCGUCGuGCGc -5'
8331 5' -54.6 NC_002067.1 + 24549 0.73 0.267825
Target:  5'- uUCGAGGaCCaaUCG-CGCccGCAGCACGCGg -3'
miRNA:   3'- -AGCUUUaGG--AGCaGCG--CGUCGUGCGC- -5'
8331 5' -54.6 NC_002067.1 + 24120 1.08 0.000782
Target:  5'- cUCGAAAUCCUCGUCGCGCAGCACGCGc -3'
miRNA:   3'- -AGCUUUAGGAGCAGCGCGUCGUGCGC- -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.