miRNA display CGI


Results 1 - 20 of 21 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
27201 5' -59 NC_005832.1 + 75431 0.66 0.685428
Target:  5'- uGAGuGCUAGGGAGCUUUGGGaGa---GGa -3'
miRNA:   3'- -UUC-CGGUCCCUCGAAGUCC-CgaugCC- -5'
27201 5' -59 NC_005832.1 + 72575 0.66 0.685428
Target:  5'- uGGGGCCccuGGGCUUCAGGGUcccgACGu -3'
miRNA:   3'- -UUCCGGuccCUCGAAGUCCCGa---UGCc -5'
27201 5' -59 NC_005832.1 + 29915 0.66 0.6544
Target:  5'- aGAGGCCuggucuGGGGCggCgGGGGCgGCGGu -3'
miRNA:   3'- -UUCCGGuc----CCUCGaaG-UCCCGaUGCC- -5'
27201 5' -59 NC_005832.1 + 17755 0.66 0.644009
Target:  5'- gGGGGCUGGGGcucuggGGUUUUGGGGuUUugGGg -3'
miRNA:   3'- -UUCCGGUCCC------UCGAAGUCCC-GAugCC- -5'
27201 5' -59 NC_005832.1 + 72849 0.67 0.623206
Target:  5'- uGGGGCCu--GAGCgcccUCAGGGCccagACGGu -3'
miRNA:   3'- -UUCCGGuccCUCGa---AGUCCCGa---UGCC- -5'
27201 5' -59 NC_005832.1 + 80555 0.67 0.623206
Target:  5'- gGAGGUCGguggagacGGGGGCaaUCAGGGagauUACGGg -3'
miRNA:   3'- -UUCCGGU--------CCCUCGa-AGUCCCg---AUGCC- -5'
27201 5' -59 NC_005832.1 + 88268 0.67 0.599321
Target:  5'- -uGGCCAGGGucCUcucggagauuacgcUCAGGGCggugGCGu -3'
miRNA:   3'- uuCCGGUCCCucGA--------------AGUCCCGa---UGCc -5'
27201 5' -59 NC_005832.1 + 7551 0.67 0.581747
Target:  5'- uGAGGCCcaGGAGCUcCccgAGGGC-ACGGa -3'
miRNA:   3'- -UUCCGGucCCUCGAaG---UCCCGaUGCC- -5'
27201 5' -59 NC_005832.1 + 96526 0.67 0.578656
Target:  5'- aGAGGCCGuguccucaaacugcGaGuGGGCUUUAucGGGCUACGGc -3'
miRNA:   3'- -UUCCGGU--------------C-C-CUCGAAGU--CCCGAUGCC- -5'
27201 5' -59 NC_005832.1 + 67489 0.68 0.561211
Target:  5'- gAAGGUguGGuGGGCUcCGGcGGCggugGCGGg -3'
miRNA:   3'- -UUCCGguCC-CUCGAaGUC-CCGa---UGCC- -5'
27201 5' -59 NC_005832.1 + 25659 0.68 0.561211
Target:  5'- aGAGGUCGGGGGGacaUGGGGUU-CGGg -3'
miRNA:   3'- -UUCCGGUCCCUCgaaGUCCCGAuGCC- -5'
27201 5' -59 NC_005832.1 + 6531 0.69 0.491254
Target:  5'- cGGGGCCAGGGAcag--GGGGCagGCGGu -3'
miRNA:   3'- -UUCCGGUCCCUcgaagUCCCGa-UGCC- -5'
27201 5' -59 NC_005832.1 + 32335 0.69 0.481576
Target:  5'- cGGGGCUggAGGGGGaucCUUguGGGCUcCGGa -3'
miRNA:   3'- -UUCCGG--UCCCUC---GAAguCCCGAuGCC- -5'
27201 5' -59 NC_005832.1 + 19450 0.7 0.44384
Target:  5'- -cGGCCuGGGAGuCUU---GGCUGCGGa -3'
miRNA:   3'- uuCCGGuCCCUC-GAAgucCCGAUGCC- -5'
27201 5' -59 NC_005832.1 + 93586 0.72 0.331547
Target:  5'- cAGGCCGccucccgugcuagcGGGAGCgaucaugcUCAGGGCUcCGGc -3'
miRNA:   3'- uUCCGGU--------------CCCUCGa-------AGUCCCGAuGCC- -5'
27201 5' -59 NC_005832.1 + 36534 0.73 0.27017
Target:  5'- cAGGGCCGGGG-GCcaCAGGGCguugGCGu -3'
miRNA:   3'- -UUCCGGUCCCuCGaaGUCCCGa---UGCc -5'
27201 5' -59 NC_005832.1 + 41755 0.74 0.266293
Target:  5'- -uGGCCAGGGAGaaacccgucagcgUCaAGGGCUACaGGg -3'
miRNA:   3'- uuCCGGUCCCUCga-----------AG-UCCCGAUG-CC- -5'
27201 5' -59 NC_005832.1 + 19979 0.74 0.233404
Target:  5'- uGGGCC-GGGAGCUUCAcgaccuuguGGGCguggAUGGa -3'
miRNA:   3'- uUCCGGuCCCUCGAAGU---------CCCGa---UGCC- -5'
27201 5' -59 NC_005832.1 + 46964 0.75 0.21665
Target:  5'- uGAGGCCAGGGAGCUgaggAGGGaga-GGg -3'
miRNA:   3'- -UUCCGGUCCCUCGAag--UCCCgaugCC- -5'
27201 5' -59 NC_005832.1 + 692 0.78 0.132968
Target:  5'- -cGGCCGGGGAGCUcgugagCAGGGUguccuCGGa -3'
miRNA:   3'- uuCCGGUCCCUCGAa-----GUCCCGau---GCC- -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.