miRNA display CGI


Results 1 - 20 of 56 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
28005 3' -53.6 NC_005887.1 + 23951 0.66 0.721801
Target:  5'- cGGCGCcgcGG-CGuAGGCCAUCGGGUucGCGa -3'
miRNA:   3'- -UUGCGu--CCaGC-UUCGGUAGUUCG--UGC- -5'
28005 3' -53.6 NC_005887.1 + 15258 0.69 0.50654
Target:  5'- cGCGCGuGUCGAaccAGCgCAgCAAGCGCGg -3'
miRNA:   3'- uUGCGUcCAGCU---UCG-GUaGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 6340 0.7 0.433039
Target:  5'- uGACGCugcuGGUUGAAcaacggcuGuCCAUCGAGCACa -3'
miRNA:   3'- -UUGCGu---CCAGCUU--------C-GGUAGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 38353 1.06 0.001445
Target:  5'- gAACGCAGGUCGAAGCCAUCAAGCACGc -3'
miRNA:   3'- -UUGCGUCCAGCUUCGGUAGUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 19206 0.66 0.676643
Target:  5'- cACGgGGGUCGAGGaUCGUCAcGC-CGu -3'
miRNA:   3'- uUGCgUCCAGCUUC-GGUAGUuCGuGC- -5'
28005 3' -53.6 NC_005887.1 + 26502 0.66 0.665207
Target:  5'- cGCGCGGGcguuucccUCGAucgcGCCGcgCAAGCGCu -3'
miRNA:   3'- uUGCGUCC--------AGCUu---CGGUa-GUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 15024 0.67 0.607755
Target:  5'- uGGCGCA-GUCGAcguGGCCGgaCGAGUGCGa -3'
miRNA:   3'- -UUGCGUcCAGCU---UCGGUa-GUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 13970 0.68 0.584858
Target:  5'- uGACGaCAGccgCGAAGCCGUCGA-CGCGu -3'
miRNA:   3'- -UUGC-GUCca-GCUUCGGUAGUUcGUGC- -5'
28005 3' -53.6 NC_005887.1 + 17778 0.68 0.561003
Target:  5'- uGCGCAGGUgUGAAGCUgacggcgAUCAugGGCGCc -3'
miRNA:   3'- uUGCGUCCA-GCUUCGG-------UAGU--UCGUGc -5'
28005 3' -53.6 NC_005887.1 + 34840 0.69 0.516388
Target:  5'- uGACGCucgGGGUCGu-GCCGccgaggguguaguUCAAGCGCa -3'
miRNA:   3'- -UUGCG---UCCAGCuuCGGU-------------AGUUCGUGc -5'
28005 3' -53.6 NC_005887.1 + 12252 0.69 0.528527
Target:  5'- cGGCGUAGccGUCGAAGCgGUCGacaAGUACa -3'
miRNA:   3'- -UUGCGUC--CAGCUUCGgUAGU---UCGUGc -5'
28005 3' -53.6 NC_005887.1 + 17540 0.68 0.573469
Target:  5'- uGCGCAGGacaUCGAgaAGCCGcugUCGgccAGCACa -3'
miRNA:   3'- uUGCGUCC---AGCU--UCGGU---AGU---UCGUGc -5'
28005 3' -53.6 NC_005887.1 + 2094 0.66 0.721801
Target:  5'- cAGCgGCAGcacgaacauauuGcCGAAGCCGUCGcucGGCACGc -3'
miRNA:   3'- -UUG-CGUC------------CaGCUUCGGUAGU---UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 8430 0.69 0.52742
Target:  5'- --gGCAGGUCGAcgucgaaGGCUucacuccCGAGCACGa -3'
miRNA:   3'- uugCGUCCAGCU-------UCGGua-----GUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 36780 0.66 0.720688
Target:  5'- uGGCGCAGGUCagcgucggcgauaGAuugcAGCCAcgUggGCGCa -3'
miRNA:   3'- -UUGCGUCCAG-------------CU----UCGGUa-GuuCGUGc -5'
28005 3' -53.6 NC_005887.1 + 1158 0.68 0.573469
Target:  5'- cGCGCGGGUCGGAuGCagcCAGGCGg- -3'
miRNA:   3'- uUGCGUCCAGCUU-CGguaGUUCGUgc -5'
28005 3' -53.6 NC_005887.1 + 356 0.69 0.517487
Target:  5'- cGACGUGGGcCGcAGGCCGUgcugcugauaggCGAGCGCGc -3'
miRNA:   3'- -UUGCGUCCaGC-UUCGGUA------------GUUCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 41449 0.7 0.463813
Target:  5'- cGACGCGGaUCGAAGCCGaggccgccugacUCGuccggcGGCGCGg -3'
miRNA:   3'- -UUGCGUCcAGCUUCGGU------------AGU------UCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 25892 0.66 0.699365
Target:  5'- cGCGC-GGUCGAGcgcauGCCcgCGcGCACGc -3'
miRNA:   3'- uUGCGuCCAGCUU-----CGGuaGUuCGUGC- -5'
28005 3' -53.6 NC_005887.1 + 36469 0.67 0.658329
Target:  5'- cGACGUuccGGUCGuAGCUGUCGccccacucgccuuucAGCGCGg -3'
miRNA:   3'- -UUGCGu--CCAGCuUCGGUAGU---------------UCGUGC- -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.