miRNA display CGI


Results 1 - 20 of 31 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
12354 3' -58.3 NC_003324.1 + 25115 1.06 0.000898
Target:  5'- uCGAUCUGGCGAUCGGCAACCCGCCGUu -3'
miRNA:   3'- -GCUAGACCGCUAGCCGUUGGGCGGCA- -5'
12354 3' -58.3 NC_003324.1 + 54391 0.73 0.236845
Target:  5'- aCGAUCUaucaGGCGAaCGGCAACUCcCCGg -3'
miRNA:   3'- -GCUAGA----CCGCUaGCCGUUGGGcGGCa -5'
12354 3' -58.3 NC_003324.1 + 13002 0.71 0.310125
Target:  5'- gCGG-CUGGCGAUCuGCAgggcggcaucaacGCCCGCCc- -3'
miRNA:   3'- -GCUaGACCGCUAGcCGU-------------UGGGCGGca -5'
12354 3' -58.3 NC_003324.1 + 28586 0.71 0.31841
Target:  5'- cCGuUUUGGCGGUucgCGGCuuccGCCCGCUGUc -3'
miRNA:   3'- -GCuAGACCGCUA---GCCGu---UGGGCGGCA- -5'
12354 3' -58.3 NC_003324.1 + 50218 0.71 0.322999
Target:  5'- aCGAUCUGGCGGgcacgcuccaaaGGCAugGCgCCGCUGa -3'
miRNA:   3'- -GCUAGACCGCUag----------CCGU--UG-GGCGGCa -5'
12354 3' -58.3 NC_003324.1 + 22592 0.7 0.358147
Target:  5'- aGAUC-GGCGGccuuUUGGCuGCCUGCCGc -3'
miRNA:   3'- gCUAGaCCGCU----AGCCGuUGGGCGGCa -5'
12354 3' -58.3 NC_003324.1 + 43164 0.69 0.392352
Target:  5'- gGA--UGGCGAgacgacauucUCGGCGuCCUGCCGUg -3'
miRNA:   3'- gCUagACCGCU----------AGCCGUuGGGCGGCA- -5'
12354 3' -58.3 NC_003324.1 + 38334 0.69 0.40123
Target:  5'- cCGAccugaUGGCGAUCGGCAuUCCGgCGc -3'
miRNA:   3'- -GCUag---ACCGCUAGCCGUuGGGCgGCa -5'
12354 3' -58.3 NC_003324.1 + 49408 0.69 0.40123
Target:  5'- uCGAUC--GCGAUCGGCgAGCCCGgCa- -3'
miRNA:   3'- -GCUAGacCGCUAGCCG-UUGGGCgGca -5'
12354 3' -58.3 NC_003324.1 + 43250 0.69 0.40123
Target:  5'- uCGAggCUGGCucgGAUUGGCGcucgcucaacaaGCUCGCCGUc -3'
miRNA:   3'- -GCUa-GACCG---CUAGCCGU------------UGGGCGGCA- -5'
12354 3' -58.3 NC_003324.1 + 16313 0.69 0.40123
Target:  5'- uGcgCUGGCcgcGUCGGCAcgGCCUGCCc- -3'
miRNA:   3'- gCuaGACCGc--UAGCCGU--UGGGCGGca -5'
12354 3' -58.3 NC_003324.1 + 4831 0.68 0.457069
Target:  5'- uGAagaUGGCGuugcuUCGGCcuUCCGCCGUa -3'
miRNA:   3'- gCUag-ACCGCu----AGCCGuuGGGCGGCA- -5'
12354 3' -58.3 NC_003324.1 + 15923 0.68 0.457069
Target:  5'- gGAUUgagaaaagUGGCGAuagucuUCGGCAGCUCgGCCGc -3'
miRNA:   3'- gCUAG--------ACCGCU------AGCCGUUGGG-CGGCa -5'
12354 3' -58.3 NC_003324.1 + 32914 0.67 0.486508
Target:  5'- -cGUCagUGGCGAUgaucgaggCGGCuGCCCGCCa- -3'
miRNA:   3'- gcUAG--ACCGCUA--------GCCGuUGGGCGGca -5'
12354 3' -58.3 NC_003324.1 + 13625 0.67 0.486508
Target:  5'- aCGcgCaGGCGAUCGGCA-UCCGauCCGa -3'
miRNA:   3'- -GCuaGaCCGCUAGCCGUuGGGC--GGCa -5'
12354 3' -58.3 NC_003324.1 + 44683 0.67 0.486508
Target:  5'- uCGAUCgUGGUG-UUGGCAGCCuCGaCGUg -3'
miRNA:   3'- -GCUAG-ACCGCuAGCCGUUGG-GCgGCA- -5'
12354 3' -58.3 NC_003324.1 + 16261 0.67 0.486508
Target:  5'- --uUCUGGCGGgagcugCGGU-GCCCGCCu- -3'
miRNA:   3'- gcuAGACCGCUa-----GCCGuUGGGCGGca -5'
12354 3' -58.3 NC_003324.1 + 5937 0.67 0.495514
Target:  5'- uCGcugCUGGCuAUCaGGCAgcgaacuACCCGCCGa -3'
miRNA:   3'- -GCua-GACCGcUAG-CCGU-------UGGGCGGCa -5'
12354 3' -58.3 NC_003324.1 + 55134 0.67 0.496519
Target:  5'- --uUCUGcGcCGucgCGGCAGCCCaGCCGUc -3'
miRNA:   3'- gcuAGAC-C-GCua-GCCGUUGGG-CGGCA- -5'
12354 3' -58.3 NC_003324.1 + 5460 0.67 0.506624
Target:  5'- gGGUCaGGCaggCGGCGucGCCCGCCc- -3'
miRNA:   3'- gCUAGaCCGcuaGCCGU--UGGGCGGca -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.