miRNA display CGI


Results 1 - 20 of 42 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
14587 3' -54.1 NC_003521.1 + 3759 0.66 0.980676
Target:  5'- --cGGGAUgGAGCGA-GCC-CUGAUGu -3'
miRNA:   3'- gcaCCCUAaCUCGUUcCGGuGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 4128 0.67 0.976154
Target:  5'- gGUGGGAUacggGAGCG-GGCCGgcGGCu -3'
miRNA:   3'- gCACCCUAa---CUCGUuCCGGUgaCUGc -5'
14587 3' -54.1 NC_003521.1 + 26532 0.66 0.982681
Target:  5'- cCGUGGuGA-UGGGCAuccuGGCCuccuccuaccaGCUGAUGc -3'
miRNA:   3'- -GCACC-CUaACUCGUu---CCGG-----------UGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 37535 0.69 0.937
Target:  5'- -cUGGGggUGGGCAgcggGGGUCGC-GGCGg -3'
miRNA:   3'- gcACCCuaACUCGU----UCCGGUGaCUGC- -5'
14587 3' -54.1 NC_003521.1 + 44951 0.68 0.940741
Target:  5'- --gGGGAUgggcagucccgaGAGCGAGGCgacagCGCUGACGc -3'
miRNA:   3'- gcaCCCUAa-----------CUCGUUCCG-----GUGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 45810 0.71 0.840153
Target:  5'- --aGGGGga-GGCgAAGGCCACUGGCa -3'
miRNA:   3'- gcaCCCUaacUCG-UUCCGGUGACUGc -5'
14587 3' -54.1 NC_003521.1 + 46029 0.68 0.941654
Target:  5'- aCGUGGGGagGAGUgAGGGgCGCcaUGACGu -3'
miRNA:   3'- -GCACCCUaaCUCG-UUCCgGUG--ACUGC- -5'
14587 3' -54.1 NC_003521.1 + 53094 0.66 0.986216
Target:  5'- aCGUGGcGA-UGAGaCAAGucacguaCCGCUGGCGa -3'
miRNA:   3'- -GCACC-CUaACUC-GUUCc------GGUGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 55929 0.66 0.986216
Target:  5'- aCG-GGGGUgccagcgGGGUauGAGGCCuCUGugGa -3'
miRNA:   3'- -GCaCCCUAa------CUCG--UUCCGGuGACugC- -5'
14587 3' -54.1 NC_003521.1 + 77666 0.68 0.961197
Target:  5'- cCGUcGGGAgacAGCAggccgggGGGCaCGCUGGCGa -3'
miRNA:   3'- -GCA-CCCUaacUCGU-------UCCG-GUGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 84766 0.67 0.976154
Target:  5'- uCGaUGucGUUGAGCGuGGCCagGCUGACGc -3'
miRNA:   3'- -GC-ACccUAACUCGUuCCGG--UGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 87092 0.66 0.986216
Target:  5'- gGUGGGccacggUGGGCAucguGCCGCUGGUGg -3'
miRNA:   3'- gCACCCua----ACUCGUuc--CGGUGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 95424 0.68 0.958004
Target:  5'- gGUGGGGUcgaUGAGC-AGGCC-CaGGCc -3'
miRNA:   3'- gCACCCUA---ACUCGuUCCGGuGaCUGc -5'
14587 3' -54.1 NC_003521.1 + 98229 0.68 0.958004
Target:  5'- gCGUGGGAggcgggGAgGCGGgggcGGCCAC-GGCGg -3'
miRNA:   3'- -GCACCCUaa----CU-CGUU----CCGGUGaCUGC- -5'
14587 3' -54.1 NC_003521.1 + 100685 0.68 0.941654
Target:  5'- aGUGGuGAUgcUGAuGCGGaggcgccgccgcGGCCGCUGAUGg -3'
miRNA:   3'- gCACC-CUA--ACU-CGUU------------CCGGUGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 102019 0.72 0.832039
Target:  5'- gCGUGG--UUGAGCAccuGGGCCAC-GGCGc -3'
miRNA:   3'- -GCACCcuAACUCGU---UCCGGUGaCUGC- -5'
14587 3' -54.1 NC_003521.1 + 109735 0.7 0.877147
Target:  5'- gGUGGGAcUUGuGCAGGGUCaccgcaaACUGGCc -3'
miRNA:   3'- gCACCCU-AACuCGUUCCGG-------UGACUGc -5'
14587 3' -54.1 NC_003521.1 + 110185 0.73 0.77074
Target:  5'- --aGGaGGUUGGGgugGAGGCCGCUGGCGu -3'
miRNA:   3'- gcaCC-CUAACUCg--UUCCGGUGACUGC- -5'
14587 3' -54.1 NC_003521.1 + 111189 0.67 0.964867
Target:  5'- aCG-GGGAcgUUGAGCAcccgccGGGCgGCcGGCGa -3'
miRNA:   3'- -GCaCCCU--AACUCGU------UCCGgUGaCUGC- -5'
14587 3' -54.1 NC_003521.1 + 113581 0.66 0.984525
Target:  5'- gGUGGGGcUGGGCcucgGGGGCaACgggGGCGg -3'
miRNA:   3'- gCACCCUaACUCG----UUCCGgUGa--CUGC- -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.