miRNA display CGI


Results 1 - 20 of 94 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
8043 3' -60.5 NC_001973.1 + 55788 0.78 0.190277
Target:  5'- cUCGGcGCgCuUCGGAaaaacgcuCGGCUCGAACGGCg -3'
miRNA:   3'- -AGCC-CG-GcAGCCU--------GCCGAGCUUGCCG- -5'
8043 3' -60.5 NC_001973.1 + 134992 0.78 0.199501
Target:  5'- cCGGGCCGUCGGGCGG---GAGCcgGGCa -3'
miRNA:   3'- aGCCCGGCAGCCUGCCgagCUUG--CCG- -5'
8043 3' -60.5 NC_001973.1 + 30362 0.78 0.199501
Target:  5'- uUCGGGCCGcCGGcGCGGCgacUCGGgugcgggccggcGCGGCg -3'
miRNA:   3'- -AGCCCGGCaGCC-UGCCG---AGCU------------UGCCG- -5'
8043 3' -60.5 NC_001973.1 + 146061 0.77 0.214065
Target:  5'- gUUGGGCCG-CGGcgccgagcCGGCUCGGGCGGg -3'
miRNA:   3'- -AGCCCGGCaGCCu-------GCCGAGCUUGCCg -5'
8043 3' -60.5 NC_001973.1 + 51452 0.77 0.219119
Target:  5'- --aGGCCGcgagccCGGGCGaGCUCGAGCGGCc -3'
miRNA:   3'- agcCCGGCa-----GCCUGC-CGAGCUUGCCG- -5'
8043 3' -60.5 NC_001973.1 + 146105 0.75 0.281638
Target:  5'- gUCGGGCCG-CGGcgcugagcCGGCUCGGgaGCGGg -3'
miRNA:   3'- -AGCCCGGCaGCCu-------GCCGAGCU--UGCCg -5'
8043 3' -60.5 NC_001973.1 + 132541 0.75 0.294421
Target:  5'- cCGGGCgCGgCGG-CgGGCUCGAgcGCGGCg -3'
miRNA:   3'- aGCCCG-GCaGCCuG-CCGAGCU--UGCCG- -5'
8043 3' -60.5 NC_001973.1 + 95784 0.75 0.307652
Target:  5'- aCGGGCgCGgcuggaccggCGuGACGGCUacgCGGACGGCa -3'
miRNA:   3'- aGCCCG-GCa---------GC-CUGCCGA---GCUUGCCG- -5'
8043 3' -60.5 NC_001973.1 + 8176 0.75 0.314436
Target:  5'- gCGGGUCGaCGGACGaGCgCGccGACGGCa -3'
miRNA:   3'- aGCCCGGCaGCCUGC-CGaGC--UUGCCG- -5'
8043 3' -60.5 NC_001973.1 + 55902 0.74 0.321332
Target:  5'- cUCGGGCuCGggcUCGGGCucgGGCUCGGGCucgGGCu -3'
miRNA:   3'- -AGCCCG-GC---AGCCUG---CCGAGCUUG---CCG- -5'
8043 3' -60.5 NC_001973.1 + 81174 0.74 0.335463
Target:  5'- aUCGGG-CGUCGGGuCGGCggCGGcgACGGUg -3'
miRNA:   3'- -AGCCCgGCAGCCU-GCCGa-GCU--UGCCG- -5'
8043 3' -60.5 NC_001973.1 + 96900 0.74 0.349302
Target:  5'- gCGGGCgCGUCGGAucguucuCGGC-CGuuCGGCg -3'
miRNA:   3'- aGCCCG-GCAGCCU-------GCCGaGCuuGCCG- -5'
8043 3' -60.5 NC_001973.1 + 150197 0.74 0.357499
Target:  5'- gUGGGCCGcggcUCGGccuCGGCUugcUGGGCGGCc -3'
miRNA:   3'- aGCCCGGC----AGCCu--GCCGA---GCUUGCCG- -5'
8043 3' -60.5 NC_001973.1 + 146513 0.73 0.388424
Target:  5'- gCGGGaUCGUCGGGCagcagaGGgUCGAACuGGCa -3'
miRNA:   3'- aGCCC-GGCAGCCUG------CCgAGCUUG-CCG- -5'
8043 3' -60.5 NC_001973.1 + 4933 0.73 0.396425
Target:  5'- gCGGGCuCGUCGccGAcCGGCcgguccaCGAACGGCa -3'
miRNA:   3'- aGCCCG-GCAGC--CU-GCCGa------GCUUGCCG- -5'
8043 3' -60.5 NC_001973.1 + 124807 0.73 0.404531
Target:  5'- -aGGGCCGgggccucgaUCGGACGG-UCGAGgaguuCGGCa -3'
miRNA:   3'- agCCCGGC---------AGCCUGCCgAGCUU-----GCCG- -5'
8043 3' -60.5 NC_001973.1 + 28960 0.72 0.429466
Target:  5'- -gGGGCCGgcagUCGGGCGGCgacgcguuguagUCGGggaagggcgccgGCGGCu -3'
miRNA:   3'- agCCCGGC----AGCCUGCCG------------AGCU------------UGCCG- -5'
8043 3' -60.5 NC_001973.1 + 83816 0.72 0.437977
Target:  5'- cUGGGCCGcgCGcGGCGgaGCUCGAaucggagagagaGCGGCa -3'
miRNA:   3'- aGCCCGGCa-GC-CUGC--CGAGCU------------UGCCG- -5'
8043 3' -60.5 NC_001973.1 + 35676 0.72 0.455284
Target:  5'- gCGcGGCCGaCGG-CGGCgCGGugGCGGCg -3'
miRNA:   3'- aGC-CCGGCaGCCuGCCGaGCU--UGCCG- -5'
8043 3' -60.5 NC_001973.1 + 81857 0.71 0.464075
Target:  5'- -gGGGUCGUCGGGCGaGUa-GAACaGGCa -3'
miRNA:   3'- agCCCGGCAGCCUGC-CGagCUUG-CCG- -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.