miRNA display CGI


Results 1 - 20 of 300 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
19812 3' -57.1 NC_004687.1 + 43638 0.66 0.899723
Target:  5'- gCCGCGAggGCCGGGugCaugucaagGACgucGCgCCg -3'
miRNA:   3'- -GGCGCUagCGGCUCugG--------CUGaa-CG-GG- -5'
19812 3' -57.1 NC_004687.1 + 27281 0.66 0.889477
Target:  5'- gCUGCacUCGCCGAGGacaagcacuaucgccCCGACgucccgGCCUg -3'
miRNA:   3'- -GGCGcuAGCGGCUCU---------------GGCUGaa----CGGG- -5'
19812 3' -57.1 NC_004687.1 + 112383 0.66 0.893384
Target:  5'- aCGCGuuccUgGCCGAacucGAUCGGCUguucacugcUGCCCc -3'
miRNA:   3'- gGCGCu---AgCGGCU----CUGGCUGA---------ACGGG- -5'
19812 3' -57.1 NC_004687.1 + 100072 0.66 0.886829
Target:  5'- aCgGUGAccgaCGCCGAGAUCGAg--GCCUu -3'
miRNA:   3'- -GgCGCUa---GCGGCUCUGGCUgaaCGGG- -5'
19812 3' -57.1 NC_004687.1 + 128991 0.66 0.893384
Target:  5'- aCGgGAguaCGCCGAGAUgaCGAUggucgaacugGCCCa -3'
miRNA:   3'- gGCgCUa--GCGGCUCUG--GCUGaa--------CGGG- -5'
19812 3' -57.1 NC_004687.1 + 140771 0.66 0.899723
Target:  5'- aCGCGGUC-CUGguGGGCUGGC--GCCCg -3'
miRNA:   3'- gGCGCUAGcGGC--UCUGGCUGaaCGGG- -5'
19812 3' -57.1 NC_004687.1 + 153383 0.66 0.905843
Target:  5'- -gGaCGAcUCGaCCGGGACCGACcgGCUa -3'
miRNA:   3'- ggC-GCU-AGC-GGCUCUGGCUGaaCGGg -5'
19812 3' -57.1 NC_004687.1 + 121284 0.66 0.899723
Target:  5'- cCUGCuGGUgGUCGAGuCCGGCUa-CCCg -3'
miRNA:   3'- -GGCG-CUAgCGGCUCuGGCUGAacGGG- -5'
19812 3' -57.1 NC_004687.1 + 49538 0.66 0.905843
Target:  5'- gCCaGCG-UCGCauggccaaCGAGGCCGGug-GCCCg -3'
miRNA:   3'- -GG-CGCuAGCG--------GCUCUGGCUgaaCGGG- -5'
19812 3' -57.1 NC_004687.1 + 22764 0.66 0.893384
Target:  5'- gCCGUGGUCgagcugGCCGcGACUGACgacgucGCCa -3'
miRNA:   3'- -GGCGCUAG------CGGCuCUGGCUGaa----CGGg -5'
19812 3' -57.1 NC_004687.1 + 7279 0.66 0.886829
Target:  5'- gCGUGAUgGCCGcGACCGAUccgaUGCg- -3'
miRNA:   3'- gGCGCUAgCGGCuCUGGCUGa---ACGgg -5'
19812 3' -57.1 NC_004687.1 + 139505 0.66 0.886829
Target:  5'- -gGCGuccaccGUCGCUGAcaaGGCCGACaaGUCCg -3'
miRNA:   3'- ggCGC------UAGCGGCU---CUGGCUGaaCGGG- -5'
19812 3' -57.1 NC_004687.1 + 27655 0.66 0.899723
Target:  5'- cUCGUGGUCGCgCGAucgGAUCucguuguccaaGACUcUGCCCa -3'
miRNA:   3'- -GGCGCUAGCG-GCU---CUGG-----------CUGA-ACGGG- -5'
19812 3' -57.1 NC_004687.1 + 94537 0.66 0.893384
Target:  5'- gCGCGAgUGCCGGGACUggGACga-CCUg -3'
miRNA:   3'- gGCGCUaGCGGCUCUGG--CUGaacGGG- -5'
19812 3' -57.1 NC_004687.1 + 125077 0.66 0.899098
Target:  5'- aCCGCGA-CGgCGAGccauggauucagcACUGGCggguaGCCCg -3'
miRNA:   3'- -GGCGCUaGCgGCUC-------------UGGCUGaa---CGGG- -5'
19812 3' -57.1 NC_004687.1 + 114520 0.66 0.893384
Target:  5'- gCGCGAagaggUCGCCcugGAGACCccgccgGGCgagcGCCCu -3'
miRNA:   3'- gGCGCU-----AGCGG---CUCUGG------CUGaa--CGGG- -5'
19812 3' -57.1 NC_004687.1 + 20719 0.66 0.90403
Target:  5'- aCGCGAUcgCGCCGAGcgcgcacguccgcuGCCG-CUgacCCCg -3'
miRNA:   3'- gGCGCUA--GCGGCUC--------------UGGCuGAac-GGG- -5'
19812 3' -57.1 NC_004687.1 + 130782 0.66 0.886829
Target:  5'- cCCGCGAUCGUCGgcgccuuugaGGcgcugcaggcaGCCGACUcgguggGCgCCg -3'
miRNA:   3'- -GGCGCUAGCGGC----------UC-----------UGGCUGAa-----CG-GG- -5'
19812 3' -57.1 NC_004687.1 + 39549 0.66 0.905843
Target:  5'- -gGCG-UCGCCG-GGCCgGGCaacGCCCc -3'
miRNA:   3'- ggCGCuAGCGGCuCUGG-CUGaa-CGGG- -5'
19812 3' -57.1 NC_004687.1 + 65418 0.66 0.886829
Target:  5'- aCGCGGucuaucaguUCGgCGAGACCGAgaUcagcGCCUg -3'
miRNA:   3'- gGCGCU---------AGCgGCUCUGGCUgaA----CGGG- -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.