miRNA display CGI


Results 1 - 20 of 45 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
20496 3' -63.9 NC_004688.1 + 573 0.68 0.389783
Target:  5'- cCGGUgGGCCGUucuugCGCCGGC-ACGGauGGc -3'
miRNA:   3'- -GCUA-CCGGCG-----GCGGCCGaUGCCggCC- -5'
20496 3' -63.9 NC_004688.1 + 898 0.66 0.475199
Target:  5'- aGGUGaucguuccuGCCGCUGCCGcGCUgACGGuuGc -3'
miRNA:   3'- gCUAC---------CGGCGGCGGC-CGA-UGCCggCc -5'
20496 3' -63.9 NC_004688.1 + 7846 0.7 0.294851
Target:  5'- ---cGGCCGCCaGCCccaGGCcgAUGGCCGa -3'
miRNA:   3'- gcuaCCGGCGG-CGG---CCGa-UGCCGGCc -5'
20496 3' -63.9 NC_004688.1 + 10577 0.68 0.414355
Target:  5'- aGGU-GCCGCCcgGCagaGGCU-CGGUCGGg -3'
miRNA:   3'- gCUAcCGGCGG--CGg--CCGAuGCCGGCC- -5'
20496 3' -63.9 NC_004688.1 + 10878 0.67 0.457344
Target:  5'- gCGGUGGCgCGCaCGCCgacgaccuGGUUGuuCGaGCCGGu -3'
miRNA:   3'- -GCUACCG-GCG-GCGG--------CCGAU--GC-CGGCC- -5'
20496 3' -63.9 NC_004688.1 + 14294 0.66 0.521264
Target:  5'- cCGAUGcGCCccaaucccCCGCCGGCU-CGGUgGu -3'
miRNA:   3'- -GCUAC-CGGc-------GGCGGCCGAuGCCGgCc -5'
20496 3' -63.9 NC_004688.1 + 16947 0.67 0.439856
Target:  5'- uCGG-GGCCGCUgGCgGGCUucaacACGgcGCCGGg -3'
miRNA:   3'- -GCUaCCGGCGG-CGgCCGA-----UGC--CGGCC- -5'
20496 3' -63.9 NC_004688.1 + 17628 0.66 0.502611
Target:  5'- gCGAgcucGGCgGCaacauCGUCGGCgcgaucggcGCGGCCGGc -3'
miRNA:   3'- -GCUa---CCGgCG-----GCGGCCGa--------UGCCGGCC- -5'
20496 3' -63.9 NC_004688.1 + 17756 0.69 0.354008
Target:  5'- uCGggGGCCGcCCGCggcggcgcuuaggagCGGCUucgACGGCCu- -3'
miRNA:   3'- -GCuaCCGGC-GGCG---------------GCCGA---UGCCGGcc -5'
20496 3' -63.9 NC_004688.1 + 19073 0.66 0.484256
Target:  5'- uCGAaGGCCGgCGUgGGCguguuCGGCCc- -3'
miRNA:   3'- -GCUaCCGGCgGCGgCCGau---GCCGGcc -5'
20496 3' -63.9 NC_004688.1 + 20309 0.68 0.373941
Target:  5'- cCGA-GGCCGaCCGCgGGgU-CGGCCaGGu -3'
miRNA:   3'- -GCUaCCGGC-GGCGgCCgAuGCCGG-CC- -5'
20496 3' -63.9 NC_004688.1 + 20905 0.67 0.466227
Target:  5'- ---cGGCCaucUCGCCGGCgaccgcaACGGCCGu -3'
miRNA:   3'- gcuaCCGGc--GGCGGCCGa------UGCCGGCc -5'
20496 3' -63.9 NC_004688.1 + 23184 0.7 0.281952
Target:  5'- --cUGGaucuccagCGCCGCCuGCUggGCGGCCGGa -3'
miRNA:   3'- gcuACCg-------GCGGCGGcCGA--UGCCGGCC- -5'
20496 3' -63.9 NC_004688.1 + 23912 0.7 0.294851
Target:  5'- aCGuu-GCCGaguCCGCCGGCga-GGCCGGc -3'
miRNA:   3'- -GCuacCGGC---GGCGGCCGaugCCGGCC- -5'
20496 3' -63.9 NC_004688.1 + 24826 0.68 0.414355
Target:  5'- aGGUuGuCCGCCaaGCCGGCUA-GGCCGc -3'
miRNA:   3'- gCUAcC-GGCGG--CGGCCGAUgCCGGCc -5'
20496 3' -63.9 NC_004688.1 + 25419 0.66 0.484256
Target:  5'- cCGG-GGCCGCUGaauCCaGCUACGggcguGCCGGu -3'
miRNA:   3'- -GCUaCCGGCGGC---GGcCGAUGC-----CGGCC- -5'
20496 3' -63.9 NC_004688.1 + 26306 0.72 0.224115
Target:  5'- cCGA-GGCCGCCGCCcuggGGCUGCcaGCCu- -3'
miRNA:   3'- -GCUaCCGGCGGCGG----CCGAUGc-CGGcc -5'
20496 3' -63.9 NC_004688.1 + 26403 0.69 0.329093
Target:  5'- --uUGuGCCGCCGCCGaggccgccggaGCUGcCGGaCCGGc -3'
miRNA:   3'- gcuAC-CGGCGGCGGC-----------CGAU-GCC-GGCC- -5'
20496 3' -63.9 NC_004688.1 + 27664 0.66 0.475199
Target:  5'- uGAguUGGCCaucgaaGCCgaGCCGGauaGCGGUCGGg -3'
miRNA:   3'- gCU--ACCGG------CGG--CGGCCga-UGCCGGCC- -5'
20496 3' -63.9 NC_004688.1 + 28315 0.67 0.422754
Target:  5'- ---cGGuuGaCCGCCGGCggaaccaGCuGCCGGg -3'
miRNA:   3'- gcuaCCggC-GGCGGCCGa------UGcCGGCC- -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.