miRNA display CGI


Results 1 - 20 of 22 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
18236 5' -55.2 NC_004680.1 + 46125 0.66 0.729576
Target:  5'- gGCGUCGUCGgugguggugaauucgGCGGUGACGgggcgGCCuuGGGu -3'
miRNA:   3'- -UGCGGCAGU---------------UGUCACUGUa----CGG--CCUu -5'
18236 5' -55.2 NC_004680.1 + 51406 0.66 0.725299
Target:  5'- -gGCCGU-GGgGGUGugGUGuCCGGGAu -3'
miRNA:   3'- ugCGGCAgUUgUCACugUAC-GGCCUU- -5'
18236 5' -55.2 NC_004680.1 + 1238 0.66 0.714544
Target:  5'- gACGUuguacaCGUCGACGGcugGGCA-GCCGGGg -3'
miRNA:   3'- -UGCG------GCAGUUGUCa--CUGUaCGGCCUu -5'
18236 5' -55.2 NC_004680.1 + 43534 0.66 0.714544
Target:  5'- gACGCCGccacguUCGAcCAG-GGCG-GCCGGGAa -3'
miRNA:   3'- -UGCGGC------AGUU-GUCaCUGUaCGGCCUU- -5'
18236 5' -55.2 NC_004680.1 + 47369 0.66 0.708051
Target:  5'- -aGCCGaUCAACAGUGGCucuuggauagguGuugcuuccaagcucuUGCCGGAc -3'
miRNA:   3'- ugCGGC-AGUUGUCACUG------------U---------------ACGGCCUu -5'
18236 5' -55.2 NC_004680.1 + 37976 0.66 0.708051
Target:  5'- cACGCCGguacgcauccucggCGGCAGU--CAUGCCGGu- -3'
miRNA:   3'- -UGCGGCa-------------GUUGUCAcuGUACGGCCuu -5'
18236 5' -55.2 NC_004680.1 + 13043 0.66 0.692797
Target:  5'- -aG-CGUCAGCGGUGACGccGCaCGGAu -3'
miRNA:   3'- ugCgGCAGUUGUCACUGUa-CG-GCCUu -5'
18236 5' -55.2 NC_004680.1 + 47694 0.66 0.692797
Target:  5'- cACGCC-UCGACGGUGGCGcgguucgGCUgaGGAAa -3'
miRNA:   3'- -UGCGGcAGUUGUCACUGUa------CGG--CCUU- -5'
18236 5' -55.2 NC_004680.1 + 1570 0.66 0.692797
Target:  5'- cACGCCugguGCAGUGugAugagacggUGCCGGAu -3'
miRNA:   3'- -UGCGGcaguUGUCACugU--------ACGGCCUu -5'
18236 5' -55.2 NC_004680.1 + 35013 0.66 0.681829
Target:  5'- uGCGCCGggCAcgucuaguccuuGCGGcguUGACGUGcCCGGAc -3'
miRNA:   3'- -UGCGGCa-GU------------UGUC---ACUGUAC-GGCCUu -5'
18236 5' -55.2 NC_004680.1 + 11058 0.67 0.670812
Target:  5'- cCGCCGUCGA---UGGCAuccugcUGCCGGGc -3'
miRNA:   3'- uGCGGCAGUUgucACUGU------ACGGCCUu -5'
18236 5' -55.2 NC_004680.1 + 54970 0.67 0.670812
Target:  5'- -gGCCGgcaCGAuCGGUGGCggGUCGGAAu -3'
miRNA:   3'- ugCGGCa--GUU-GUCACUGuaCGGCCUU- -5'
18236 5' -55.2 NC_004680.1 + 6260 0.67 0.670812
Target:  5'- cUGCaCGUCAccuuACGGUGAC--GCCGGGu -3'
miRNA:   3'- uGCG-GCAGU----UGUCACUGuaCGGCCUu -5'
18236 5' -55.2 NC_004680.1 + 54282 0.67 0.615389
Target:  5'- gUGCCGUCGugGGUGACuucgauUCGGAu -3'
miRNA:   3'- uGCGGCAGUugUCACUGuac---GGCCUu -5'
18236 5' -55.2 NC_004680.1 + 51781 0.68 0.56032
Target:  5'- aACGCCGgagCAGCAGuUGACAgaguugcggGCCGcGGu -3'
miRNA:   3'- -UGCGGCa--GUUGUC-ACUGUa--------CGGC-CUu -5'
18236 5' -55.2 NC_004680.1 + 23865 0.69 0.549449
Target:  5'- uCGCCGUCAcauCGGUGACAUcgGCCa--- -3'
miRNA:   3'- uGCGGCAGUu--GUCACUGUA--CGGccuu -5'
18236 5' -55.2 NC_004680.1 + 170 0.69 0.548366
Target:  5'- uACGuuGUCGGCggaucaugauguGGUGGCGccagaccUGCCGGAu -3'
miRNA:   3'- -UGCggCAGUUG------------UCACUGU-------ACGGCCUu -5'
18236 5' -55.2 NC_004680.1 + 46600 0.69 0.532196
Target:  5'- aACGCCGUCAugaaaaaguuguucgGCGGUGAUgcGUCGuGAGg -3'
miRNA:   3'- -UGCGGCAGU---------------UGUCACUGuaCGGC-CUU- -5'
18236 5' -55.2 NC_004680.1 + 48678 0.71 0.42023
Target:  5'- cGCGUCGgccgCAaguaccuauaccugcACGGUGACA-GCCGGAAa -3'
miRNA:   3'- -UGCGGCa---GU---------------UGUCACUGUaCGGCCUU- -5'
18236 5' -55.2 NC_004680.1 + 27693 0.71 0.397726
Target:  5'- cACGUCGgucaccCAGCGGUGAUccgagAUGCCGGGg -3'
miRNA:   3'- -UGCGGCa-----GUUGUCACUG-----UACGGCCUu -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.