miRNA display CGI


Results 1 - 14 of 14 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
27102 5' -59.1 NC_005832.1 + 32312 0.66 0.720442
Target:  5'- gGGcUCCGGaccccaUGCCguggaCUCCCCUCgCCg-- -3'
miRNA:   3'- -CC-AGGCC------ACGGa----GAGGGGAGaGGaac -5'
27102 5' -59.1 NC_005832.1 + 99469 0.66 0.720442
Target:  5'- ---aCGGgaGCCUCUCCCgCUucgggcagCUCCUUGa -3'
miRNA:   3'- ccagGCCa-CGGAGAGGG-GA--------GAGGAAC- -5'
27102 5' -59.1 NC_005832.1 + 93849 0.67 0.659998
Target:  5'- gGGcCCGGgugggGCCuUCUCCUC-CUCCa-- -3'
miRNA:   3'- -CCaGGCCa----CGG-AGAGGGGaGAGGaac -5'
27102 5' -59.1 NC_005832.1 + 42917 0.67 0.649796
Target:  5'- gGGU-CGGUGUgUCUCagguCCUCUCCa-- -3'
miRNA:   3'- -CCAgGCCACGgAGAGg---GGAGAGGaac -5'
27102 5' -59.1 NC_005832.1 + 74965 0.68 0.608925
Target:  5'- uGGUUCGGUuaCUCUUCCCccaUCCUg- -3'
miRNA:   3'- -CCAGGCCAcgGAGAGGGGag-AGGAac -5'
27102 5' -59.1 NC_005832.1 + 32194 0.68 0.588563
Target:  5'- gGGUCCGGaGCCcacaaggaUCCCC-CUCCa-- -3'
miRNA:   3'- -CCAGGCCaCGGag------AGGGGaGAGGaac -5'
27102 5' -59.1 NC_005832.1 + 67028 0.68 0.568327
Target:  5'- gGGUCCcacuacggccaGGUGCCccuucCUCCCgUCUCCc-- -3'
miRNA:   3'- -CCAGG-----------CCACGGa----GAGGGgAGAGGaac -5'
27102 5' -59.1 NC_005832.1 + 39902 0.69 0.54827
Target:  5'- -cUCCGGgggGCCUCUagacCCCCUCauUCCg-- -3'
miRNA:   3'- ccAGGCCa--CGGAGA----GGGGAG--AGGaac -5'
27102 5' -59.1 NC_005832.1 + 10181 0.69 0.499217
Target:  5'- ---aCGGUgacugccaccGCCUCUCCCCUggCCUUGa -3'
miRNA:   3'- ccagGCCA----------CGGAGAGGGGAgaGGAAC- -5'
27102 5' -59.1 NC_005832.1 + 68184 0.7 0.443101
Target:  5'- -aUCaGGaUGCCUCcgCCCCUCUCCUc- -3'
miRNA:   3'- ccAGgCC-ACGGAGa-GGGGAGAGGAac -5'
27102 5' -59.1 NC_005832.1 + 76408 0.73 0.320117
Target:  5'- uGG-CacaGGUGCCUCUCCUCUCUgCCg-- -3'
miRNA:   3'- -CCaGg--CCACGGAGAGGGGAGA-GGaac -5'
27102 5' -59.1 NC_005832.1 + 56478 0.73 0.305786
Target:  5'- aGGUCCaGGcccgagGCCuuggcaUCUCCCCUCUgCUUGa -3'
miRNA:   3'- -CCAGG-CCa-----CGG------AGAGGGGAGAgGAAC- -5'
27102 5' -59.1 NC_005832.1 + 45736 0.75 0.241509
Target:  5'- aGcCUGGUGCCgucugccaccgUCUCCCCUCUCUUUa -3'
miRNA:   3'- cCaGGCCACGG-----------AGAGGGGAGAGGAAc -5'
27102 5' -59.1 NC_005832.1 + 76061 1.11 0.000785
Target:  5'- aGGUCCGGUGCCUCUCCCCUCUCCUUGg -3'
miRNA:   3'- -CCAGGCCACGGAGAGGGGAGAGGAAC- -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.