miRNA display CGI


Results 1 - 13 of 13 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
17167 3' -51.5 NC_004333.2 + 23487 0.66 0.854875
Target:  5'- cGGCGGCGGguacgugCCGGgcuaccAGUACGgCGUg -3'
miRNA:   3'- -UCGUCGUCaaa----GGCCa-----UCAUGC-GUAg -5'
17167 3' -51.5 NC_004333.2 + 45536 0.67 0.787564
Target:  5'- gGGCGGCAGguggacgCC-GUAGUugGCcgCc -3'
miRNA:   3'- -UCGUCGUCaaa----GGcCAUCAugCGuaG- -5'
17167 3' -51.5 NC_004333.2 + 3929 0.67 0.777138
Target:  5'- cGGCGGCAGgccgaCCGGcaGGUugGCGc- -3'
miRNA:   3'- -UCGUCGUCaaa--GGCCa-UCAugCGUag -5'
17167 3' -51.5 NC_004333.2 + 9538 0.68 0.755802
Target:  5'- cGGCGGCGGUgcggcacCCGcGccUGGUGCGCAg- -3'
miRNA:   3'- -UCGUCGUCAaa-----GGC-C--AUCAUGCGUag -5'
17167 3' -51.5 NC_004333.2 + 32258 0.68 0.722787
Target:  5'- cAGCAGCGGccgaaagccUUCCGGaUGGcGCGgGUCg -3'
miRNA:   3'- -UCGUCGUCa--------AAGGCC-AUCaUGCgUAG- -5'
17167 3' -51.5 NC_004333.2 + 28975 0.68 0.722787
Target:  5'- cGCGGCgaucAGUUgcgcggccgCCGGgucggcGUGCGCAUCg -3'
miRNA:   3'- uCGUCG----UCAAa--------GGCCau----CAUGCGUAG- -5'
17167 3' -51.5 NC_004333.2 + 36311 0.68 0.711566
Target:  5'- cGCccgAGUAGUcgCCGGgcGU-CGCAUCg -3'
miRNA:   3'- uCG---UCGUCAaaGGCCauCAuGCGUAG- -5'
17167 3' -51.5 NC_004333.2 + 47540 0.69 0.688878
Target:  5'- cGCGGCAGUcgccgCCGGcgcguugcUAGUcgAUGCGUCg -3'
miRNA:   3'- uCGUCGUCAaa---GGCC--------AUCA--UGCGUAG- -5'
17167 3' -51.5 NC_004333.2 + 33459 0.7 0.647502
Target:  5'- uGGCAGCGGcgcgCCGGgcgauccagaguugAGUGgGCGUCu -3'
miRNA:   3'- -UCGUCGUCaaa-GGCCa-------------UCAUgCGUAG- -5'
17167 3' -51.5 NC_004333.2 + 32940 0.7 0.61977
Target:  5'- uGGCAGCAGgua--GGc-GUGCGCGUCg -3'
miRNA:   3'- -UCGUCGUCaaaggCCauCAUGCGUAG- -5'
17167 3' -51.5 NC_004333.2 + 15506 0.73 0.442857
Target:  5'- cGCGGCGGUcaCCGGcg--GCGCGUCa -3'
miRNA:   3'- uCGUCGUCAaaGGCCaucaUGCGUAG- -5'
17167 3' -51.5 NC_004333.2 + 47242 0.74 0.383958
Target:  5'- cGGCAGCGcGUucUUCCGGcgucAGaUGCGCAUCg -3'
miRNA:   3'- -UCGUCGU-CA--AAGGCCa---UC-AUGCGUAG- -5'
17167 3' -51.5 NC_004333.2 + 24160 1.09 0.001642
Target:  5'- gAGCAGCAGUUUCCGGUAGUACGCAUCc -3'
miRNA:   3'- -UCGUCGUCAAAGGCCAUCAUGCGUAG- -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.