miRNA display CGI


Results 1 - 20 of 52 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
1464 3' -55.4 NC_001335.1 + 313 0.66 0.711015
Target:  5'- cGGCCuugaaGGGCCGgucauagagaucuauUCGAu--CCGGCAaCCg -3'
miRNA:   3'- -CUGG-----UCCGGC---------------AGCUuauGGCCGUaGG- -5'
1464 3' -55.4 NC_001335.1 + 612 0.72 0.342003
Target:  5'- -uCCAGGCCG-CGAGauagGCCGGCAc-- -3'
miRNA:   3'- cuGGUCCGGCaGCUUa---UGGCCGUagg -5'
1464 3' -55.4 NC_001335.1 + 1848 0.68 0.55401
Target:  5'- gGGCCAGcCUGUCGAAgaucgagggGCUGGUcgAUCCg -3'
miRNA:   3'- -CUGGUCcGGCAGCUUa--------UGGCCG--UAGG- -5'
1464 3' -55.4 NC_001335.1 + 2119 0.7 0.490835
Target:  5'- -uCCuGGCUGUCGAGgugGCCccucgGGCGUUCg -3'
miRNA:   3'- cuGGuCCGGCAGCUUa--UGG-----CCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 2494 0.67 0.663281
Target:  5'- -uCCGGGaCCGUUGAu--CUGGCAaagCCa -3'
miRNA:   3'- cuGGUCC-GGCAGCUuauGGCCGUa--GG- -5'
1464 3' -55.4 NC_001335.1 + 3481 0.67 0.662187
Target:  5'- gGACgCA-GCCGUCGGA-GCCGgaaacgcugucguGCAUCCg -3'
miRNA:   3'- -CUG-GUcCGGCAGCUUaUGGC-------------CGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 5814 0.66 0.71743
Target:  5'- aACguGGCUGaCGAcaccguCUGGCGUCCa -3'
miRNA:   3'- cUGguCCGGCaGCUuau---GGCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 5958 0.7 0.450624
Target:  5'- aGACCAGGCCcgagCGggUcggGCUGGCcugugCCg -3'
miRNA:   3'- -CUGGUCCGGca--GCuuA---UGGCCGua---GG- -5'
1464 3' -55.4 NC_001335.1 + 6238 0.71 0.412291
Target:  5'- cACCAGGUCGcugccUCGGAcacgAUgGGCAUCCu -3'
miRNA:   3'- cUGGUCCGGC-----AGCUUa---UGgCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 7579 0.75 0.228598
Target:  5'- aGACCGGGgUGUCG---GCCGGCGcuUCCa -3'
miRNA:   3'- -CUGGUCCgGCAGCuuaUGGCCGU--AGG- -5'
1464 3' -55.4 NC_001335.1 + 7954 0.72 0.3503
Target:  5'- --gCAGGCCGUCGcugACaCGGCAgCCg -3'
miRNA:   3'- cugGUCCGGCAGCuuaUG-GCCGUaGG- -5'
1464 3' -55.4 NC_001335.1 + 8160 0.66 0.685103
Target:  5'- cACCGGGuuGuUCGG--GCUGGCGUUg -3'
miRNA:   3'- cUGGUCCggC-AGCUuaUGGCCGUAGg -5'
1464 3' -55.4 NC_001335.1 + 8621 0.76 0.19504
Target:  5'- cGCCAGGCCGUCGAGgguuuccGCCucGGCGaugCCg -3'
miRNA:   3'- cUGGUCCGGCAGCUUa------UGG--CCGUa--GG- -5'
1464 3' -55.4 NC_001335.1 + 9841 0.68 0.554009
Target:  5'- aGCCuGGGaCCGUCGggU--CGGCGUCg -3'
miRNA:   3'- cUGG-UCC-GGCAGCuuAugGCCGUAGg -5'
1464 3' -55.4 NC_001335.1 + 13199 1.11 0.000767
Target:  5'- gGACCAGGCCGUCGAAUACCGGCAUCCc -3'
miRNA:   3'- -CUGGUCCGGCAGCUUAUGGCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 13290 0.69 0.532631
Target:  5'- cGugCGauGGCCG--GGAUGCCGGUAUUCg -3'
miRNA:   3'- -CugGU--CCGGCagCUUAUGGCCGUAGG- -5'
1464 3' -55.4 NC_001335.1 + 13428 0.69 0.543286
Target:  5'- gGACUGGGCCccgaGGAUGCCGuGC-UCCu -3'
miRNA:   3'- -CUGGUCCGGcag-CUUAUGGC-CGuAGG- -5'
1464 3' -55.4 NC_001335.1 + 17222 0.66 0.674212
Target:  5'- uGGCCgaGGGCCGUCGccagcGCCGGgAUg- -3'
miRNA:   3'- -CUGG--UCCGGCAGCuua--UGGCCgUAgg -5'
1464 3' -55.4 NC_001335.1 + 18709 0.68 0.597444
Target:  5'- -uUCAGGUag-CGggUACCGGaGUCCg -3'
miRNA:   3'- cuGGUCCGgcaGCuuAUGGCCgUAGG- -5'
1464 3' -55.4 NC_001335.1 + 20224 0.67 0.645737
Target:  5'- uGACCGGGuUCGUcCGAGggaugguccaacugGCCGGCGacggCCa -3'
miRNA:   3'- -CUGGUCC-GGCA-GCUUa-------------UGGCCGUa---GG- -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.