miRNA display CGI


Results 1 - 20 of 53 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
27411 3' -58.1 NC_005869.1 + 31086 0.67 0.367643
Target:  5'- aGCGgcuGGGGCugaAGCUGCCcaGGCGG-CCg -3'
miRNA:   3'- aCGC---UCCCG---UUGAUGGcgUCGCCaGG- -5'
27411 3' -58.1 NC_005869.1 + 29286 1.12 0.000163
Target:  5'- cUGCGAGGGCAACUACCGCAGCGGUCCg -3'
miRNA:   3'- -ACGCUCCCGUUGAUGGCGUCGCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 28445 0.69 0.272458
Target:  5'- gUGCGAGacccaguGCGagcGCUGCCGCAGCGacgCCc -3'
miRNA:   3'- -ACGCUCc------CGU---UGAUGGCGUCGCca-GG- -5'
27411 3' -58.1 NC_005869.1 + 25728 0.67 0.372961
Target:  5'- gGCGAGGGCcucuuugagugcuACUGCCGCuGCaa-CCu -3'
miRNA:   3'- aCGCUCCCGu------------UGAUGGCGuCGccaGG- -5'
27411 3' -58.1 NC_005869.1 + 24654 0.67 0.385572
Target:  5'- cGCGcacuGGCGGCUGCC-CAGUGGgacCCc -3'
miRNA:   3'- aCGCuc--CCGUUGAUGGcGUCGCCa--GG- -5'
27411 3' -58.1 NC_005869.1 + 24554 0.73 0.154106
Target:  5'- cGCGGGGGCGccuucgaGCUGCgGCcccgggagGGCGG-CCg -3'
miRNA:   3'- aCGCUCCCGU-------UGAUGgCG--------UCGCCaGG- -5'
27411 3' -58.1 NC_005869.1 + 23382 0.69 0.286838
Target:  5'- gGCGAGGGCG---ACCGagAGCGcGUCg -3'
miRNA:   3'- aCGCUCCCGUugaUGGCg-UCGC-CAGg -5'
27411 3' -58.1 NC_005869.1 + 22422 0.66 0.442695
Target:  5'- aGCGGGG---ACUGCCaccucacgcGCcGCGGUCCc -3'
miRNA:   3'- aCGCUCCcguUGAUGG---------CGuCGCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 21942 0.74 0.130514
Target:  5'- cGCGcuGGGCGaucACUGCCGCacguccugggacAGCcGGUCCa -3'
miRNA:   3'- aCGCu-CCCGU---UGAUGGCG------------UCG-CCAGG- -5'
27411 3' -58.1 NC_005869.1 + 21147 0.69 0.279574
Target:  5'- -cCGAGGGCAGCca--GCGGgGGUUCa -3'
miRNA:   3'- acGCUCCCGUUGauggCGUCgCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 20975 0.69 0.258663
Target:  5'- cGCGAGGGCGGCU-CCucggucagggGCAGgGGg-- -3'
miRNA:   3'- aCGCUCCCGUUGAuGG----------CGUCgCCagg -5'
27411 3' -58.1 NC_005869.1 + 20750 0.68 0.309517
Target:  5'- cUGcCGGGGGCGACcuacACCuacgAGUGGUCCu -3'
miRNA:   3'- -AC-GCUCCCGUUGa---UGGcg--UCGCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 20725 0.73 0.154537
Target:  5'- cGCGGcGGCGGCgGCCgGCGGCGGcgCCu -3'
miRNA:   3'- aCGCUcCCGUUGaUGG-CGUCGCCa-GG- -5'
27411 3' -58.1 NC_005869.1 + 20365 0.67 0.367643
Target:  5'- gGCGGaGGCGACgcuccCUGCGGCGGcgCUg -3'
miRNA:   3'- aCGCUcCCGUUGau---GGCGUCGCCa-GG- -5'
27411 3' -58.1 NC_005869.1 + 20292 0.7 0.251322
Target:  5'- gGUG-GGGCccAGgUACCGCGGCGGcacauaaagaggcUCCg -3'
miRNA:   3'- aCGCuCCCG--UUgAUGGCGUCGCC-------------AGG- -5'
27411 3' -58.1 NC_005869.1 + 19071 0.75 0.113178
Target:  5'- cGCagGAuGGCGACgccgucgaugaUGCCGCAGUGGUCCu -3'
miRNA:   3'- aCG--CUcCCGUUG-----------AUGGCGUCGCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 18409 0.69 0.279574
Target:  5'- uUGCGGaGGCGGCgGCUGCGGCGcaCCc -3'
miRNA:   3'- -ACGCUcCCGUUGaUGGCGUCGCcaGG- -5'
27411 3' -58.1 NC_005869.1 + 17833 0.66 0.432842
Target:  5'- gGCGccucGGcGCAGCggcgGCagGCGGCGGUaCCg -3'
miRNA:   3'- aCGCu---CC-CGUUGa---UGg-CGUCGCCA-GG- -5'
27411 3' -58.1 NC_005869.1 + 17554 0.75 0.103835
Target:  5'- gGCGGuGGCAGC-GCCGCccgcccgcagcGGCGGUCCc -3'
miRNA:   3'- aCGCUcCCGUUGaUGGCG-----------UCGCCAGG- -5'
27411 3' -58.1 NC_005869.1 + 17473 0.66 0.432842
Target:  5'- cGCGgggcuaGGGGCGGCgugggUGCUGgAGCGGgcggcUCCa -3'
miRNA:   3'- aCGC------UCCCGUUG-----AUGGCgUCGCC-----AGG- -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.