miRNA display CGI


Results 1 - 20 of 40 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
20756 3' -53.5 NC_004688.1 + 15237 0.66 0.949575
Target:  5'- gGGCcuacuGCGGUUaucacGUGGucaacggcGCCGCGCCGc -3'
miRNA:   3'- -CCGu----UGCCAAa----CGCCua------UGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 10904 0.66 0.949142
Target:  5'- uGGUGGCaGUgaccUGCGuGAUACCggcgguggcgcgcACGCCGa -3'
miRNA:   3'- -CCGUUGcCAa---ACGC-CUAUGG-------------UGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 35486 0.66 0.94422
Target:  5'- uGGcCGACGGggcugagcccGCGcGGUcCCACGCCa -3'
miRNA:   3'- -CC-GUUGCCaaa-------CGC-CUAuGGUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 62970 0.66 0.935513
Target:  5'- cGGC-GCGGcg-GCGGAgaucACCGCGUg- -3'
miRNA:   3'- -CCGuUGCCaaaCGCCUa---UGGUGCGgc -5'
20756 3' -53.5 NC_004688.1 + 102865 0.66 0.930324
Target:  5'- gGGCAA-GGUUUgGCGGcgGUACCAggagaccggacCGCUGg -3'
miRNA:   3'- -CCGUUgCCAAA-CGCC--UAUGGU-----------GCGGC- -5'
20756 3' -53.5 NC_004688.1 + 3487 0.67 0.924881
Target:  5'- uGGuCGGCGGcUUGCugauGGUGCCA-GCCGa -3'
miRNA:   3'- -CC-GUUGCCaAACGc---CUAUGGUgCGGC- -5'
20756 3' -53.5 NC_004688.1 + 8104 0.67 0.924881
Target:  5'- uGCGGCGGaaUGCGGA-ACCACaUCGc -3'
miRNA:   3'- cCGUUGCCaaACGCCUaUGGUGcGGC- -5'
20756 3' -53.5 NC_004688.1 + 77605 0.67 0.921493
Target:  5'- cGGCGAgGaGUUUGCGGAU-CUGCucggcagauuccucgGCCGc -3'
miRNA:   3'- -CCGUUgC-CAAACGCCUAuGGUG---------------CGGC- -5'
20756 3' -53.5 NC_004688.1 + 74062 0.67 0.919184
Target:  5'- uGGCAcAgGGUguccaUGCGGGUGgUgaGCGCCGc -3'
miRNA:   3'- -CCGU-UgCCAa----ACGCCUAUgG--UGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 89897 0.67 0.919184
Target:  5'- cGgGugGGUgcgGCGGcucgccGCCugGCCGg -3'
miRNA:   3'- cCgUugCCAaa-CGCCua----UGGugCGGC- -5'
20756 3' -53.5 NC_004688.1 + 75594 0.67 0.918601
Target:  5'- uGCGACGGggUGuCGGccGCCGCGgacuccuCCGg -3'
miRNA:   3'- cCGUUGCCaaAC-GCCuaUGGUGC-------GGC- -5'
20756 3' -53.5 NC_004688.1 + 16979 0.67 0.913235
Target:  5'- cGGCcGCGGU--GCGGGcgAUgACGUCGg -3'
miRNA:   3'- -CCGuUGCCAaaCGCCUa-UGgUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 45082 0.67 0.913235
Target:  5'- uGGUGGCGGccugcuuagcgUUGUGGc-GCCGCGCCu -3'
miRNA:   3'- -CCGUUGCCa----------AACGCCuaUGGUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 31271 0.67 0.900585
Target:  5'- gGGCAAUcaGGUccacGCGcGuaucgGCCGCGCCGg -3'
miRNA:   3'- -CCGUUG--CCAaa--CGC-Cua---UGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 80519 0.67 0.900585
Target:  5'- uGGCcACGGUcaGCcGGUGCCAggugcgggagcCGCCGa -3'
miRNA:   3'- -CCGuUGCCAaaCGcCUAUGGU-----------GCGGC- -5'
20756 3' -53.5 NC_004688.1 + 19229 0.68 0.889755
Target:  5'- cGGCAGCGGcgaguucgGCGGccguucgugucgaacGU-CCACGCCc -3'
miRNA:   3'- -CCGUUGCCaaa-----CGCC---------------UAuGGUGCGGc -5'
20756 3' -53.5 NC_004688.1 + 105378 0.68 0.886951
Target:  5'- cGGCAAgGGUcgGCGGAccgucACCgugACGCUa -3'
miRNA:   3'- -CCGUUgCCAaaCGCCUa----UGG---UGCGGc -5'
20756 3' -53.5 NC_004688.1 + 98689 0.68 0.886951
Target:  5'- -cCAGCGGU--GCGGAUAucCCAuCGCCu -3'
miRNA:   3'- ccGUUGCCAaaCGCCUAU--GGU-GCGGc -5'
20756 3' -53.5 NC_004688.1 + 27173 0.68 0.886951
Target:  5'- aGGCGGCGcauGUUUuCGGccgACUGCGCCGa -3'
miRNA:   3'- -CCGUUGC---CAAAcGCCua-UGGUGCGGC- -5'
20756 3' -53.5 NC_004688.1 + 83286 0.68 0.886951
Target:  5'- cGGCAcccucgaauGCGGU--GCGGAUugC-CGaCCGg -3'
miRNA:   3'- -CCGU---------UGCCAaaCGCCUAugGuGC-GGC- -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.