miRNA display CGI


Results 1 - 20 of 80 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
17215 3' -55.5 NC_004333.2 + 37907 0.66 0.623876
Target:  5'- uUCGcGCUcuCgGCGACGCAaacUGCCUGCGu -3'
miRNA:   3'- uAGU-CGAu-GgUGUUGCGU---GCGGACGU- -5'
17215 3' -55.5 NC_004333.2 + 1926 0.66 0.612537
Target:  5'- cGUCAGa-ACCGC-ACGaCACcgGCCUGCAc -3'
miRNA:   3'- -UAGUCgaUGGUGuUGC-GUG--CGGACGU- -5'
17215 3' -55.5 NC_004333.2 + 4968 0.66 0.612537
Target:  5'- -aCGGCgcacUAUCGCAGCGCGCGCUa--- -3'
miRNA:   3'- uaGUCG----AUGGUGUUGCGUGCGGacgu -5'
17215 3' -55.5 NC_004333.2 + 17079 0.66 0.612537
Target:  5'- aGUCgAGCgcgGCgACGGCGUAUGCC-GCGa -3'
miRNA:   3'- -UAG-UCGa--UGgUGUUGCGUGCGGaCGU- -5'
17215 3' -55.5 NC_004333.2 + 41645 0.66 0.601215
Target:  5'- uGUCgGGCgcggGCUGCGGcCGUACGCCgGCAa -3'
miRNA:   3'- -UAG-UCGa---UGGUGUU-GCGUGCGGaCGU- -5'
17215 3' -55.5 NC_004333.2 + 29001 0.66 0.601215
Target:  5'- gGUCGGCgUGCgCAUcGCGCGCGgCUaGCAc -3'
miRNA:   3'- -UAGUCG-AUG-GUGuUGCGUGCgGA-CGU- -5'
17215 3' -55.5 NC_004333.2 + 44822 0.66 0.601215
Target:  5'- cUCGGCgaggACauggACGACGCugGCC-GCGa -3'
miRNA:   3'- uAGUCGa---UGg---UGUUGCGugCGGaCGU- -5'
17215 3' -55.5 NC_004333.2 + 32460 0.66 0.601215
Target:  5'- uUCAGC-GCCGCGACGa--GCC-GCAg -3'
miRNA:   3'- uAGUCGaUGGUGUUGCgugCGGaCGU- -5'
17215 3' -55.5 NC_004333.2 + 44958 0.66 0.601215
Target:  5'- gAUCAGCUGgCGCAGCGa--GUCggGCAg -3'
miRNA:   3'- -UAGUCGAUgGUGUUGCgugCGGa-CGU- -5'
17215 3' -55.5 NC_004333.2 + 5280 0.66 0.588795
Target:  5'- --gAGUUugCGacggugcCGACGcCGCGCCUGCAg -3'
miRNA:   3'- uagUCGAugGU-------GUUGC-GUGCGGACGU- -5'
17215 3' -55.5 NC_004333.2 + 31065 0.66 0.578667
Target:  5'- uUCAcGCcga-ACGACGCgaGCGCCUGCAg -3'
miRNA:   3'- uAGU-CGauggUGUUGCG--UGCGGACGU- -5'
17215 3' -55.5 NC_004333.2 + 41741 0.66 0.578667
Target:  5'- gAUCGGCgcggGCgACu-CGCGCGCCggGCu -3'
miRNA:   3'- -UAGUCGa---UGgUGuuGCGUGCGGa-CGu -5'
17215 3' -55.5 NC_004333.2 + 14874 0.66 0.578667
Target:  5'- --gAGCUGCUGCAG-GCGCGUCaGCAg -3'
miRNA:   3'- uagUCGAUGGUGUUgCGUGCGGaCGU- -5'
17215 3' -55.5 NC_004333.2 + 33087 0.66 0.578667
Target:  5'- gGUCAGCgugAUCACGAgcccuuCGuCGCGCCcuUGCAg -3'
miRNA:   3'- -UAGUCGa--UGGUGUU------GC-GUGCGG--ACGU- -5'
17215 3' -55.5 NC_004333.2 + 21172 0.66 0.578667
Target:  5'- uUCGcGCUGCCGCAG-GC-CGgCCUGCu -3'
miRNA:   3'- uAGU-CGAUGGUGUUgCGuGC-GGACGu -5'
17215 3' -55.5 NC_004333.2 + 43494 0.67 0.567459
Target:  5'- cGUCAGCccgACCcgAGCGUcUGCCUGCGc -3'
miRNA:   3'- -UAGUCGa--UGGugUUGCGuGCGGACGU- -5'
17215 3' -55.5 NC_004333.2 + 4876 0.67 0.567459
Target:  5'- ---cGCUGCCGCcgcugaccauguAGCGCGCG-CUGCGa -3'
miRNA:   3'- uaguCGAUGGUG------------UUGCGUGCgGACGU- -5'
17215 3' -55.5 NC_004333.2 + 35665 0.67 0.567459
Target:  5'- gGUguGCUGCuCACAGCauguGgACuGCCUGCAu -3'
miRNA:   3'- -UAguCGAUG-GUGUUG----CgUG-CGGACGU- -5'
17215 3' -55.5 NC_004333.2 + 45005 0.67 0.566341
Target:  5'- -aUAGCUGCCGacuucuuCGGCGCGCGCgacGCAu -3'
miRNA:   3'- uaGUCGAUGGU-------GUUGCGUGCGga-CGU- -5'
17215 3' -55.5 NC_004333.2 + 44144 0.67 0.564106
Target:  5'- cUCGGCcGCUaucucgacgauccgACGACGCGCGCCUa-- -3'
miRNA:   3'- uAGUCGaUGG--------------UGUUGCGUGCGGAcgu -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.