miRNA display CGI


Results 1 - 20 of 34 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
16257 3' -59.9 NC_004084.1 + 511 0.67 0.463933
Target:  5'- aAGCGguCGgacuUCGAUGAGCGguucGCCCGcCGg -3'
miRNA:   3'- -UUGCguGC----AGCUGCUCGC----CGGGCaGC- -5'
16257 3' -59.9 NC_004084.1 + 3067 0.7 0.288936
Target:  5'- gAACu--CGUCGACGGGCcGCUCGUCGa -3'
miRNA:   3'- -UUGcguGCAGCUGCUCGcCGGGCAGC- -5'
16257 3' -59.9 NC_004084.1 + 8579 0.67 0.426382
Target:  5'- -uCGCgACGUCGACGAGUGauucgaugaaCUCGUCGa -3'
miRNA:   3'- uuGCG-UGCAGCUGCUCGCc---------GGGCAGC- -5'
16257 3' -59.9 NC_004084.1 + 9355 0.67 0.430057
Target:  5'- -uCGCACGUCGACGGucacgaucuuccgauGCcGuCCCGUCc -3'
miRNA:   3'- uuGCGUGCAGCUGCU---------------CGcC-GGGCAGc -5'
16257 3' -59.9 NC_004084.1 + 9941 0.66 0.487275
Target:  5'- aGACGUGCGUCGGCGGgucggaguagccaauGCGGgCCUGa-- -3'
miRNA:   3'- -UUGCGUGCAGCUGCU---------------CGCC-GGGCagc -5'
16257 3' -59.9 NC_004084.1 + 9997 0.7 0.308231
Target:  5'- cGACG-ACGUCGACGAagaucuccgagaugGCGGCCacgaugccgCGUCGa -3'
miRNA:   3'- -UUGCgUGCAGCUGCU--------------CGCCGG---------GCAGC- -5'
16257 3' -59.9 NC_004084.1 + 13111 0.66 0.51317
Target:  5'- gGGCGUA-GUCGACcuggaguuGCGGgCCGUCGu -3'
miRNA:   3'- -UUGCGUgCAGCUGcu------CGCCgGGCAGC- -5'
16257 3' -59.9 NC_004084.1 + 14992 0.67 0.435602
Target:  5'- -uCGCucaucgaGUUGACGAagaugcgcuGCGGCUCGUCGa -3'
miRNA:   3'- uuGCGug-----CAGCUGCU---------CGCCGGGCAGC- -5'
16257 3' -59.9 NC_004084.1 + 18834 0.68 0.382085
Target:  5'- aAGCGCGCccgggaccucGUCGACGAGCuGCUCGa-- -3'
miRNA:   3'- -UUGCGUG----------CAGCUGCUCGcCGGGCagc -5'
16257 3' -59.9 NC_004084.1 + 21992 0.67 0.444936
Target:  5'- cGGCGUACGUCGACGAcgcGCGGa-CGaacaUCGa -3'
miRNA:   3'- -UUGCGUGCAGCUGCU---CGCCggGC----AGC- -5'
16257 3' -59.9 NC_004084.1 + 23350 0.68 0.408296
Target:  5'- cAGCGUcuuccgggucgACGUCGACGuuCGGaUCCGUCGc -3'
miRNA:   3'- -UUGCG-----------UGCAGCUGCucGCC-GGGCAGC- -5'
16257 3' -59.9 NC_004084.1 + 26975 0.73 0.198242
Target:  5'- -cCGCugGUCGACaGAgaccagauccaucGCGGCCgCGUCGu -3'
miRNA:   3'- uuGCGugCAGCUG-CU-------------CGCCGG-GCAGC- -5'
16257 3' -59.9 NC_004084.1 + 27297 0.66 0.51317
Target:  5'- aAGCGCGCGgcUCGACGAGCuGauauucgaCCGUUc -3'
miRNA:   3'- -UUGCGUGC--AGCUGCUCGcCg-------GGCAGc -5'
16257 3' -59.9 NC_004084.1 + 29219 0.67 0.434675
Target:  5'- --aGCGCGUCGACGuuguucGCGGgcgaguaCUCGUCGc -3'
miRNA:   3'- uugCGUGCAGCUGCu-----CGCC-------GGGCAGC- -5'
16257 3' -59.9 NC_004084.1 + 29358 0.66 0.483346
Target:  5'- cGCGCugGUCGACGccCGGgauCCCG-CGu -3'
miRNA:   3'- uUGCGugCAGCUGCucGCC---GGGCaGC- -5'
16257 3' -59.9 NC_004084.1 + 30320 0.71 0.245787
Target:  5'- aGGCGCAccccgaaccguugacCGUCGGCGAgGUGGCCgacggCGUCGg -3'
miRNA:   3'- -UUGCGU---------------GCAGCUGCU-CGCCGG-----GCAGC- -5'
16257 3' -59.9 NC_004084.1 + 30411 0.69 0.325433
Target:  5'- --aGCcgACGUCGACGGGCGGCgaCGgaagCGa -3'
miRNA:   3'- uugCG--UGCAGCUGCUCGCCGg-GCa---GC- -5'
16257 3' -59.9 NC_004084.1 + 30839 0.74 0.157251
Target:  5'- -uCGCgACGUCGAaagaggUGGGCGGCCCGcUCGu -3'
miRNA:   3'- uuGCG-UGCAGCU------GCUCGCCGGGC-AGC- -5'
16257 3' -59.9 NC_004084.1 + 31106 0.66 0.51317
Target:  5'- gGACGUACGUCGccaggaugaugaAC-AGCGGCgCCG-CGa -3'
miRNA:   3'- -UUGCGUGCAGC------------UGcUCGCCG-GGCaGC- -5'
16257 3' -59.9 NC_004084.1 + 33411 0.68 0.373601
Target:  5'- cGACGCACG-CGuACGAG-GGCCucaacaucgCGUCGa -3'
miRNA:   3'- -UUGCGUGCaGC-UGCUCgCCGG---------GCAGC- -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.