miRNA display CGI


Results 1 - 20 of 30 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
11438 3' -58.4 NC_003085.1 + 23236 0.66 0.531118
Target:  5'- aCGGccGCCgcgcuUCGCaccGCGCCGcCCGCGCAc -3'
miRNA:   3'- -GCU--CGGac---AGUG---UGCGGCaGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 22778 0.66 0.531118
Target:  5'- aGuGCCuUGUCGua-GUCGUCCugGCAc -3'
miRNA:   3'- gCuCGG-ACAGUgugCGGCAGGugCGU- -5'
11438 3' -58.4 NC_003085.1 + 12932 0.66 0.520686
Target:  5'- gCGGG-CUGUCAguCGCCGUCgcuaUACGUg -3'
miRNA:   3'- -GCUCgGACAGUguGCGGCAG----GUGCGu -5'
11438 3' -58.4 NC_003085.1 + 23880 0.66 0.520686
Target:  5'- gGGGCgUGagCGaacggcaGCaGCCGUCCACGCGc -3'
miRNA:   3'- gCUCGgACa-GUg------UG-CGGCAGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 40122 0.66 0.500072
Target:  5'- -cGGCUgcugGUC-CugGCCG-CCGCGCGu -3'
miRNA:   3'- gcUCGGa---CAGuGugCGGCaGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 26507 0.66 0.489901
Target:  5'- uGGGCCgGcucguccggcuUCGCcguCGCCGUCgACGCGg -3'
miRNA:   3'- gCUCGGaC-----------AGUGu--GCGGCAGgUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 48735 0.67 0.479827
Target:  5'- --cGCCUGUCcgugagcgGCGCGUCaGgcgCCACGCGg -3'
miRNA:   3'- gcuCGGACAG--------UGUGCGG-Ca--GGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 35865 0.67 0.469856
Target:  5'- uGuGCCUuggcGUCaugGCGCGCCuccggugcccacGUCCACGCGc -3'
miRNA:   3'- gCuCGGA----CAG---UGUGCGG------------CAGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 22878 0.67 0.459992
Target:  5'- aGAGCgUGUCGC-CGCCGgacUCCgguGCGUc -3'
miRNA:   3'- gCUCGgACAGUGuGCGGC---AGG---UGCGu -5'
11438 3' -58.4 NC_003085.1 + 14735 0.67 0.449269
Target:  5'- gCGAuGCCaucgguaUGcCACGCGCCGccguggCCAUGCAa -3'
miRNA:   3'- -GCU-CGG-------ACaGUGUGCGGCa-----GGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 12376 0.67 0.440599
Target:  5'- gGAGCgacu-GCGCGCCGUCCACcuGCAu -3'
miRNA:   3'- gCUCGgacagUGUGCGGCAGGUG--CGU- -5'
11438 3' -58.4 NC_003085.1 + 15192 0.67 0.431079
Target:  5'- uGAGCCgGUgCGCcaGCGCCGcgCCGCGgAa -3'
miRNA:   3'- gCUCGGaCA-GUG--UGCGGCa-GGUGCgU- -5'
11438 3' -58.4 NC_003085.1 + 19931 0.68 0.403259
Target:  5'- -uGGCCUGcCACugGCCcauGUUCGCGUu -3'
miRNA:   3'- gcUCGGACaGUGugCGG---CAGGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 4671 0.68 0.403259
Target:  5'- gCGAGCCUuUCACgGCGCCGagUUGCGCc -3'
miRNA:   3'- -GCUCGGAcAGUG-UGCGGCa-GGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 22994 0.68 0.403259
Target:  5'- aGcAGCCagagGUgCGCGCGCCGcagUCCugGCGc -3'
miRNA:   3'- gC-UCGGa---CA-GUGUGCGGC---AGGugCGU- -5'
11438 3' -58.4 NC_003085.1 + 40613 0.68 0.402351
Target:  5'- gGGGCCUGUgCugACggccgcuGCCGUCCucguCGCc -3'
miRNA:   3'- gCUCGGACA-GugUG-------CGGCAGGu---GCGu -5'
11438 3' -58.4 NC_003085.1 + 1178 0.68 0.394241
Target:  5'- gGAGCC---CACGCGCUGcUCUGCGCGu -3'
miRNA:   3'- gCUCGGacaGUGUGCGGC-AGGUGCGU- -5'
11438 3' -58.4 NC_003085.1 + 36699 0.69 0.376602
Target:  5'- cCGGGCCUGacugCACAUa--GUCCACGCc -3'
miRNA:   3'- -GCUCGGACa---GUGUGcggCAGGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 5558 0.69 0.376602
Target:  5'- aGGGCCUGgCGCcgcgaacgguGCGCCacGUCUACGCc -3'
miRNA:   3'- gCUCGGACaGUG----------UGCGG--CAGGUGCGu -5'
11438 3' -58.4 NC_003085.1 + 38339 0.69 0.342955
Target:  5'- uCGGGCCUGgCACGCGCaacuUCCugGgCAc -3'
miRNA:   3'- -GCUCGGACaGUGUGCGgc--AGGugC-GU- -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.