miRNA display CGI


Results 1 - 20 of 53 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
11474 3' -63.4 NC_003085.1 + 1289 0.66 0.31218
Target:  5'- cGUGCGCgCCgaaauccucaaGCGugAGCGcgaCGCCGc -3'
miRNA:   3'- uCACGCGgGG-----------CGCugUCGCag-GCGGU- -5'
11474 3' -63.4 NC_003085.1 + 34322 0.66 0.311443
Target:  5'- uAGUGCGUCUCGUGcucgucgcaccacGCGGCGcggcgcuccaUCCGCUc -3'
miRNA:   3'- -UCACGCGGGGCGC-------------UGUCGC----------AGGCGGu -5'
11474 3' -63.4 NC_003085.1 + 47253 0.66 0.304868
Target:  5'- -uUGUGCUCagGCGuCAcCGUCCGCCAc -3'
miRNA:   3'- ucACGCGGGg-CGCuGUcGCAGGCGGU- -5'
11474 3' -63.4 NC_003085.1 + 43888 0.66 0.297688
Target:  5'- uAGUgGCGUgCCGgGAugugggucuuCAGCauGUCCGCCAa -3'
miRNA:   3'- -UCA-CGCGgGGCgCU----------GUCG--CAGGCGGU- -5'
11474 3' -63.4 NC_003085.1 + 26553 0.66 0.29064
Target:  5'- aGGgcuuCGCCCCG--GCAGCcUCCGCCGg -3'
miRNA:   3'- -UCac--GCGGGGCgcUGUCGcAGGCGGU- -5'
11474 3' -63.4 NC_003085.1 + 21900 0.66 0.29064
Target:  5'- --cGUGCCCUGCcaGAUGGCGacgucaccgCCGCCGg -3'
miRNA:   3'- ucaCGCGGGGCG--CUGUCGCa--------GGCGGU- -5'
11474 3' -63.4 NC_003085.1 + 24200 0.66 0.29064
Target:  5'- cGG-GCGCgCCGaCGACGaCGcCCGCCGc -3'
miRNA:   3'- -UCaCGCGgGGC-GCUGUcGCaGGCGGU- -5'
11474 3' -63.4 NC_003085.1 + 47918 0.66 0.276938
Target:  5'- --cGCacgGCCUCGCGACAGCagacgcuggaGUCaCGCCu -3'
miRNA:   3'- ucaCG---CGGGGCGCUGUCG----------CAG-GCGGu -5'
11474 3' -63.4 NC_003085.1 + 2788 0.66 0.276938
Target:  5'- cGGcgGCGCUCCagGCGGCGGCGaagCGCCu -3'
miRNA:   3'- -UCa-CGCGGGG--CGCUGUCGCag-GCGGu -5'
11474 3' -63.4 NC_003085.1 + 12212 0.67 0.272929
Target:  5'- cGUGUGgUCUGCGACgccugccuugagcgcGGCGgcugggCCGCCAg -3'
miRNA:   3'- uCACGCgGGGCGCUG---------------UCGCa-----GGCGGU- -5'
11474 3' -63.4 NC_003085.1 + 40879 0.67 0.270282
Target:  5'- --cGCGCUCgGaCGACGGCGgcaUGCCAc -3'
miRNA:   3'- ucaCGCGGGgC-GCUGUCGCag-GCGGU- -5'
11474 3' -63.4 NC_003085.1 + 39276 0.67 0.269624
Target:  5'- --cGCGCCUCcucuacgGCGcuGCGGUGUCuCGCCAa -3'
miRNA:   3'- ucaCGCGGGG-------CGC--UGUCGCAG-GCGGU- -5'
11474 3' -63.4 NC_003085.1 + 14984 0.67 0.269624
Target:  5'- uGGgagGCGCCCCaG-GGCAGCGUCCcagagacGCUc -3'
miRNA:   3'- -UCa--CGCGGGG-CgCUGUCGCAGG-------CGGu -5'
11474 3' -63.4 NC_003085.1 + 37973 0.67 0.263756
Target:  5'- uGGUGCGCCauGU--CAGCGUCUGCg- -3'
miRNA:   3'- -UCACGCGGggCGcuGUCGCAGGCGgu -5'
11474 3' -63.4 NC_003085.1 + 26822 0.67 0.263756
Target:  5'- cAGUGaUGCCCCuGCGcGCcaGGCGUgugcccCCGCCAc -3'
miRNA:   3'- -UCAC-GCGGGG-CGC-UG--UCGCA------GGCGGU- -5'
11474 3' -63.4 NC_003085.1 + 21827 0.67 0.263756
Target:  5'- --gGCGUCCCGCuGGCGGCGagcCCcCCAg -3'
miRNA:   3'- ucaCGCGGGGCG-CUGUCGCa--GGcGGU- -5'
11474 3' -63.4 NC_003085.1 + 7968 0.67 0.257358
Target:  5'- ---uUGCCCCacagGGCAGCgGUCCGCCAu -3'
miRNA:   3'- ucacGCGGGGcg--CUGUCG-CAGGCGGU- -5'
11474 3' -63.4 NC_003085.1 + 34515 0.67 0.257358
Target:  5'- --cGCGUgCgGCGACAGCGUCaGCa- -3'
miRNA:   3'- ucaCGCGgGgCGCUGUCGCAGgCGgu -5'
11474 3' -63.4 NC_003085.1 + 39348 0.67 0.257358
Target:  5'- -cUGCGUgaggaguacuCCUGUGACGGCGUCCaCCu -3'
miRNA:   3'- ucACGCG----------GGGCGCUGUCGCAGGcGGu -5'
11474 3' -63.4 NC_003085.1 + 2516 0.67 0.257358
Target:  5'- cGGUGUGCCCgCGuCGGCcccuGCG-CgCGCCGa -3'
miRNA:   3'- -UCACGCGGG-GC-GCUGu---CGCaG-GCGGU- -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.