miRNA display CGI


Results 1 - 19 of 19 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
12563 5' -55.7 NC_003345.1 + 20235 0.66 0.793164
Target:  5'- uCGCCgGGGACGGACuugccacgGAggucgaacacGUCGGC-Ca -3'
miRNA:   3'- uGCGG-CCCUGCCUGua------CU----------UAGUCGaG- -5'
12563 5' -55.7 NC_003345.1 + 24533 0.66 0.793164
Target:  5'- aGCGCCGGGAUGuGGCGUau-UCGGa-- -3'
miRNA:   3'- -UGCGGCCCUGC-CUGUAcuuAGUCgag -5'
12563 5' -55.7 NC_003345.1 + 11932 0.66 0.783549
Target:  5'- aACGaCUGGGAuUGGuAUAUgGAGUCGGCUUc -3'
miRNA:   3'- -UGC-GGCCCU-GCC-UGUA-CUUAGUCGAG- -5'
12563 5' -55.7 NC_003345.1 + 68579 0.66 0.783549
Target:  5'- uCGCCacggaGGuACGG-CGUGGucAUCAGCUCa -3'
miRNA:   3'- uGCGGc----CC-UGCCuGUACU--UAGUCGAG- -5'
12563 5' -55.7 NC_003345.1 + 63938 0.66 0.780634
Target:  5'- -gGCCGuGGGaaacguuccaccCGGAUGUGAAcgaaauccggcuacUCAGCUCg -3'
miRNA:   3'- ugCGGC-CCU------------GCCUGUACUU--------------AGUCGAG- -5'
12563 5' -55.7 NC_003345.1 + 68290 0.66 0.773782
Target:  5'- aACGCCcGGAuuuCGGAUAUGAauguagugucGUCAGUUg -3'
miRNA:   3'- -UGCGGcCCU---GCCUGUACU----------UAGUCGAg -5'
12563 5' -55.7 NC_003345.1 + 35806 0.66 0.762878
Target:  5'- -aGCUcaaagagGGGauGCGGGCGUG--UCAGCUCg -3'
miRNA:   3'- ugCGG-------CCC--UGCCUGUACuuAGUCGAG- -5'
12563 5' -55.7 NC_003345.1 + 54255 0.66 0.743686
Target:  5'- -aGCgGGGACGGAgGU---UCAGaCUCg -3'
miRNA:   3'- ugCGgCCCUGCCUgUAcuuAGUC-GAG- -5'
12563 5' -55.7 NC_003345.1 + 28812 0.67 0.733424
Target:  5'- gAUGCCGGGAaccguUGcGGCGUGAagaagggcGUCGGCg- -3'
miRNA:   3'- -UGCGGCCCU-----GC-CUGUACU--------UAGUCGag -5'
12563 5' -55.7 NC_003345.1 + 1109 0.67 0.723065
Target:  5'- -gGCCGGGGCGGAaaacagGGggCGGCcCg -3'
miRNA:   3'- ugCGGCCCUGCCUgua---CUuaGUCGaG- -5'
12563 5' -55.7 NC_003345.1 + 56084 0.67 0.723065
Target:  5'- -gGUgGGGGCGGAgGUGGu--GGCUCu -3'
miRNA:   3'- ugCGgCCCUGCCUgUACUuagUCGAG- -5'
12563 5' -55.7 NC_003345.1 + 67560 0.67 0.723065
Target:  5'- -aGCgCGGGAUGGACA--AGUCuGCUa -3'
miRNA:   3'- ugCG-GCCCUGCCUGUacUUAGuCGAg -5'
12563 5' -55.7 NC_003345.1 + 71017 0.67 0.702097
Target:  5'- cGCGCCGaGGAUGGugAgcugGuuUCGGUUg -3'
miRNA:   3'- -UGCGGC-CCUGCCugUa---CuuAGUCGAg -5'
12563 5' -55.7 NC_003345.1 + 62949 0.68 0.659463
Target:  5'- uCGCCGGGuCGaGGCcgGGAaCAGCg- -3'
miRNA:   3'- uGCGGCCCuGC-CUGuaCUUaGUCGag -5'
12563 5' -55.7 NC_003345.1 + 25588 0.69 0.614285
Target:  5'- -gGCCGGGugGGACuuccacaCGGUUCa -3'
miRNA:   3'- ugCGGCCCugCCUGuacuua-GUCGAG- -5'
12563 5' -55.7 NC_003345.1 + 77314 0.69 0.605689
Target:  5'- -aGUCGGGGuCGGAUGgggagGggUCGGCUa -3'
miRNA:   3'- ugCGGCCCU-GCCUGUa----CuuAGUCGAg -5'
12563 5' -55.7 NC_003345.1 + 48676 0.69 0.584269
Target:  5'- -gGCCGGGGCGGuuCAUcGggUUAGUg- -3'
miRNA:   3'- ugCGGCCCUGCCu-GUA-CuuAGUCGag -5'
12563 5' -55.7 NC_003345.1 + 26568 0.71 0.500692
Target:  5'- cCGuCCGGGgugguagcgGCGGAgGUGggUCGGCa- -3'
miRNA:   3'- uGC-GGCCC---------UGCCUgUACuuAGUCGag -5'
12563 5' -55.7 NC_003345.1 + 47408 1.09 0.001363
Target:  5'- aACGCCGGGACGGACAUGAAUCAGCUCu -3'
miRNA:   3'- -UGCGGCCCUGCCUGUACUUAGUCGAG- -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.