miRNA display CGI


Results 1 - 16 of 16 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
26356 3' -53.5 NC_005345.2 + 35030 0.67 0.668551
Target:  5'- gGGGCGGGAccgGUGguGucgaGCAGUGCgcGCAg -3'
miRNA:   3'- aCUUGUCCU---CACguC----UGUCACGa-CGU- -5'
26356 3' -53.5 NC_005345.2 + 30506 0.67 0.657136
Target:  5'- cGGACAGcGAcccGCGGGCgagGGUGCUGCc -3'
miRNA:   3'- aCUUGUC-CUca-CGUCUG---UCACGACGu -5'
26356 3' -53.5 NC_005345.2 + 16834 0.67 0.655993
Target:  5'- cGAGCAGGAccggcucGUGUaccGGGCGcaGCUGCAg -3'
miRNA:   3'- aCUUGUCCU-------CACG---UCUGUcaCGACGU- -5'
26356 3' -53.5 NC_005345.2 + 38220 0.67 0.654849
Target:  5'- cGGACGGGGGgaacggggacgcGCGGAcCGGUGCagGCGu -3'
miRNA:   3'- aCUUGUCCUCa-----------CGUCU-GUCACGa-CGU- -5'
26356 3' -53.5 NC_005345.2 + 37570 0.68 0.599913
Target:  5'- cGAgGCGGGc--GCAGGCGG-GCUGCAg -3'
miRNA:   3'- aCU-UGUCCucaCGUCUGUCaCGACGU- -5'
26356 3' -53.5 NC_005345.2 + 23330 0.68 0.588515
Target:  5'- gGAACAaGGAugcgaucccGCAGACcGUGCUGCGc -3'
miRNA:   3'- aCUUGU-CCUca-------CGUCUGuCACGACGU- -5'
26356 3' -53.5 NC_005345.2 + 2402 0.68 0.577158
Target:  5'- --cGCGGGuGUGCuGG-GGUGCUGCAg -3'
miRNA:   3'- acuUGUCCuCACGuCUgUCACGACGU- -5'
26356 3' -53.5 NC_005345.2 + 45699 0.68 0.577158
Target:  5'- gUGGACAGGucccgGCGGGCGGggGuCUGCGu -3'
miRNA:   3'- -ACUUGUCCuca--CGUCUGUCa-C-GACGU- -5'
26356 3' -53.5 NC_005345.2 + 20333 0.69 0.554599
Target:  5'- aUGGGCAGGcgcgcGGUGCGGACcuUGCcgUGCGu -3'
miRNA:   3'- -ACUUGUCC-----UCACGUCUGucACG--ACGU- -5'
26356 3' -53.5 NC_005345.2 + 35398 0.69 0.532306
Target:  5'- aUGGACGGGA-UGCGGGCGGU-CgGCAc -3'
miRNA:   3'- -ACUUGUCCUcACGUCUGUCAcGaCGU- -5'
26356 3' -53.5 NC_005345.2 + 654 0.7 0.510345
Target:  5'- gUGAGCGGGAccGUGCGGAaccCGGcGUUGCu -3'
miRNA:   3'- -ACUUGUCCU--CACGUCU---GUCaCGACGu -5'
26356 3' -53.5 NC_005345.2 + 31695 0.7 0.478144
Target:  5'- gGggUcGGAGUGCGGACGGUccucgGgUGCGc -3'
miRNA:   3'- aCuuGuCCUCACGUCUGUCA-----CgACGU- -5'
26356 3' -53.5 NC_005345.2 + 4266 0.7 0.467633
Target:  5'- cGAACAccGGcGGUGCGGGCAGcucgggcucggGCUGCGg -3'
miRNA:   3'- aCUUGU--CC-UCACGUCUGUCa----------CGACGU- -5'
26356 3' -53.5 NC_005345.2 + 4192 0.72 0.397664
Target:  5'- -cGGCAGGccGUGCAGGCGGcgcggcagaUGCUGCGg -3'
miRNA:   3'- acUUGUCCu-CACGUCUGUC---------ACGACGU- -5'
26356 3' -53.5 NC_005345.2 + 48851 0.72 0.388228
Target:  5'- ---cCGGGGG-GCgGGGCGGUGCUGCGu -3'
miRNA:   3'- acuuGUCCUCaCG-UCUGUCACGACGU- -5'
26356 3' -53.5 NC_005345.2 + 15745 1.09 0.001031
Target:  5'- gUGAACAGGAGUGCAGACAGUGCUGCAu -3'
miRNA:   3'- -ACUUGUCCUCACGUCUGUCACGACGU- -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.