miRNA display CGI


Results 1 - 20 of 28 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
11560 5' -50.6 NC_003085.1 + 35932 0.66 0.925468
Target:  5'- cGCGuacuGGAccaaCGACCUCGUCuacgAGCGCc -3'
miRNA:   3'- -UGUu---CCUuua-GCUGGAGCAG----UCGUGc -5'
11560 5' -50.6 NC_003085.1 + 629 0.66 0.919303
Target:  5'- uCGAGGcuGGcgCgGACCUCGUCgaGGCGCu -3'
miRNA:   3'- uGUUCC--UUuaG-CUGGAGCAG--UCGUGc -5'
11560 5' -50.6 NC_003085.1 + 13364 0.66 0.912841
Target:  5'- gGCAGGaGAGGUggcUGACCacgucaagaaguUCGUCGGcCACGg -3'
miRNA:   3'- -UGUUC-CUUUA---GCUGG------------AGCAGUC-GUGC- -5'
11560 5' -50.6 NC_003085.1 + 26443 0.66 0.912841
Target:  5'- cACGGuGGAcGUCauguaccGCCUCGUCGGCGgGg -3'
miRNA:   3'- -UGUU-CCUuUAGc------UGGAGCAGUCGUgC- -5'
11560 5' -50.6 NC_003085.1 + 21503 0.66 0.912841
Target:  5'- cACGGGGAugaggucguucuGcgCGGCCUCGgaCAGCAgGc -3'
miRNA:   3'- -UGUUCCU------------UuaGCUGGAGCa-GUCGUgC- -5'
11560 5' -50.6 NC_003085.1 + 49064 0.66 0.912841
Target:  5'- aACAAGGAGcgcacgaCGGCCa--UCAGCGCGg -3'
miRNA:   3'- -UGUUCCUUua-----GCUGGagcAGUCGUGC- -5'
11560 5' -50.6 NC_003085.1 + 37850 0.66 0.906084
Target:  5'- gGCGAGGAuGUUGACggucUUCGcuguacCAGCGCGg -3'
miRNA:   3'- -UGUUCCUuUAGCUG----GAGCa-----GUCGUGC- -5'
11560 5' -50.6 NC_003085.1 + 18086 0.66 0.906084
Target:  5'- gGCAGuGGGAGUUGGCCUgGaagCGGCuGCGc -3'
miRNA:   3'- -UGUU-CCUUUAGCUGGAgCa--GUCG-UGC- -5'
11560 5' -50.6 NC_003085.1 + 3691 0.66 0.906084
Target:  5'- uGCGuuGGGAug-CGGCCaCG-CAGCGCGa -3'
miRNA:   3'- -UGU--UCCUuuaGCUGGaGCaGUCGUGC- -5'
11560 5' -50.6 NC_003085.1 + 44168 0.66 0.899033
Target:  5'- -gGAGGGAggCGACUUCGgucucCAGgGCGu -3'
miRNA:   3'- ugUUCCUUuaGCUGGAGCa----GUCgUGC- -5'
11560 5' -50.6 NC_003085.1 + 28993 0.67 0.876166
Target:  5'- -uGGGGcgGUUGGCCUgCGUCuGCugGu -3'
miRNA:   3'- ugUUCCuuUAGCUGGA-GCAGuCGugC- -5'
11560 5' -50.6 NC_003085.1 + 7546 0.67 0.867991
Target:  5'- cCGAGGGGugugacGUCGACCUUGccgCGGC-CGa -3'
miRNA:   3'- uGUUCCUU------UAGCUGGAGCa--GUCGuGC- -5'
11560 5' -50.6 NC_003085.1 + 16966 0.67 0.859552
Target:  5'- uGCGAGGugGcucaucgcUCGGCCUCGUUGGC-Cu -3'
miRNA:   3'- -UGUUCCuuU--------AGCUGGAGCAGUCGuGc -5'
11560 5' -50.6 NC_003085.1 + 6267 0.67 0.850856
Target:  5'- gAguAGGuauuuGUCGGCaC-CGUCGGCACGa -3'
miRNA:   3'- -UguUCCuu---UAGCUG-GaGCAGUCGUGC- -5'
11560 5' -50.6 NC_003085.1 + 43085 0.68 0.841913
Target:  5'- cCGAGGAAGaaaCGACCggcCGccagCAGCACGc -3'
miRNA:   3'- uGUUCCUUUa--GCUGGa--GCa---GUCGUGC- -5'
11560 5' -50.6 NC_003085.1 + 6947 0.68 0.832731
Target:  5'- gGCuGGGcgGUCGACUUCGgCAGCGa- -3'
miRNA:   3'- -UGuUCCuuUAGCUGGAGCaGUCGUgc -5'
11560 5' -50.6 NC_003085.1 + 7450 0.68 0.831801
Target:  5'- cGCGGGcGccGUCGGCCUCGUacuggagCGGCGCc -3'
miRNA:   3'- -UGUUC-CuuUAGCUGGAGCA-------GUCGUGc -5'
11560 5' -50.6 NC_003085.1 + 15224 0.68 0.823322
Target:  5'- -aGAGGggGcaguagugcgucUCGugCUCGUCgcaccacgcGGCGCGg -3'
miRNA:   3'- ugUUCCuuU------------AGCugGAGCAG---------UCGUGC- -5'
11560 5' -50.6 NC_003085.1 + 31438 0.69 0.762718
Target:  5'- gGCcGGGG--UCGAgcuUCUUGUCGGCGCGg -3'
miRNA:   3'- -UGuUCCUuuAGCU---GGAGCAGUCGUGC- -5'
11560 5' -50.6 NC_003085.1 + 40694 0.7 0.730297
Target:  5'- gACGAGGAcggcagCGGCC--GUCAGCACa -3'
miRNA:   3'- -UGUUCCUuua---GCUGGagCAGUCGUGc -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.