miRNA display CGI


Results 1 - 20 of 36 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
27222 3' -61.8 NC_005832.1 + 19776 0.66 0.602588
Target:  5'- uGCGGGuCUCC-CAcCCgCCGCuCGUCUCc -3'
miRNA:   3'- -UGCCC-GAGGaGUuGG-GGUG-GCAGGGc -5'
27222 3' -61.8 NC_005832.1 + 2632 0.66 0.602588
Target:  5'- -gGGGCUCC-CAcaaagugagcGCCCCccuucugcACCGaCCCGc -3'
miRNA:   3'- ugCCCGAGGaGU----------UGGGG--------UGGCaGGGC- -5'
27222 3' -61.8 NC_005832.1 + 47407 0.66 0.602587
Target:  5'- gACGGGaUCCUUGuugcuGCCCaggAgCGUCCCGg -3'
miRNA:   3'- -UGCCCgAGGAGU-----UGGGg--UgGCAGGGC- -5'
27222 3' -61.8 NC_005832.1 + 94152 0.66 0.592609
Target:  5'- --cGGCaUgUCGGCCCC-UCGUCCCGg -3'
miRNA:   3'- ugcCCGaGgAGUUGGGGuGGCAGGGC- -5'
27222 3' -61.8 NC_005832.1 + 72878 0.66 0.57274
Target:  5'- -aGGGC-CCUCuggGCCCCugggacCCGUCuuGc -3'
miRNA:   3'- ugCCCGaGGAGu--UGGGGu-----GGCAGggC- -5'
27222 3' -61.8 NC_005832.1 + 53735 0.66 0.559909
Target:  5'- gACGGgaguauacucgccuGCUCCUCgAACCCCGCgggGUCCa- -3'
miRNA:   3'- -UGCC--------------CGAGGAG-UUGGGGUGg--CAGGgc -5'
27222 3' -61.8 NC_005832.1 + 50637 0.66 0.553033
Target:  5'- gGCGaGGUgCCUCAcCCCCA-CGUCCaCGc -3'
miRNA:   3'- -UGC-CCGaGGAGUuGGGGUgGCAGG-GC- -5'
27222 3' -61.8 NC_005832.1 + 39091 0.66 0.553033
Target:  5'- -aGGGCcgUCCggGACCCCAgguucacgguccCCGaUCCCGa -3'
miRNA:   3'- ugCCCG--AGGagUUGGGGU------------GGC-AGGGC- -5'
27222 3' -61.8 NC_005832.1 + 21098 0.67 0.533533
Target:  5'- -gGGGC-CCguagggacGCCCCgGCCGUCCUGa -3'
miRNA:   3'- ugCCCGaGGagu-----UGGGG-UGGCAGGGC- -5'
27222 3' -61.8 NC_005832.1 + 44454 0.67 0.533533
Target:  5'- -gGGGgUCCUCAGCCUCACCuugaCGa -3'
miRNA:   3'- ugCCCgAGGAGUUGGGGUGGcaggGC- -5'
27222 3' -61.8 NC_005832.1 + 80064 0.67 0.533533
Target:  5'- uCGGGCUCCacguaCAGCUCCugCGcgcaggCCCc -3'
miRNA:   3'- uGCCCGAGGa----GUUGGGGugGCa-----GGGc -5'
27222 3' -61.8 NC_005832.1 + 5798 0.67 0.523875
Target:  5'- ---aGCUCCUCAGaaCCACCGacgggUCCCGg -3'
miRNA:   3'- ugccCGAGGAGUUggGGUGGC-----AGGGC- -5'
27222 3' -61.8 NC_005832.1 + 43045 0.67 0.523874
Target:  5'- uACGGGUUCCUguGuCCCUACgagaCG-CCCGa -3'
miRNA:   3'- -UGCCCGAGGAguU-GGGGUG----GCaGGGC- -5'
27222 3' -61.8 NC_005832.1 + 65837 0.67 0.485963
Target:  5'- -aGGGC-CCUCAGCCUCugGuuGUCCUc -3'
miRNA:   3'- ugCCCGaGGAGUUGGGG--UggCAGGGc -5'
27222 3' -61.8 NC_005832.1 + 52781 0.67 0.485962
Target:  5'- ---cGCUCUUUuuACCCUugCGUCCCGg -3'
miRNA:   3'- ugccCGAGGAGu-UGGGGugGCAGGGC- -5'
27222 3' -61.8 NC_005832.1 + 53883 0.68 0.476687
Target:  5'- -gGGGCUCCguucucccaGACCUCACCagaaagggGUCCUGa -3'
miRNA:   3'- ugCCCGAGGag-------UUGGGGUGG--------CAGGGC- -5'
27222 3' -61.8 NC_005832.1 + 39986 0.68 0.473921
Target:  5'- uUGGGC-CCUCuGGCCCCAuaccucccacgucuCCGUCCg- -3'
miRNA:   3'- uGCCCGaGGAG-UUGGGGU--------------GGCAGGgc -5'
27222 3' -61.8 NC_005832.1 + 5699 0.68 0.4675
Target:  5'- -aGGGcCUCCacUCGgaggGCCUgugCACCGUCCCGu -3'
miRNA:   3'- ugCCC-GAGG--AGU----UGGG---GUGGCAGGGC- -5'
27222 3' -61.8 NC_005832.1 + 10650 0.68 0.467499
Target:  5'- uCGGGUUCCUggccuccgcagcCGAuCCCCACC-UCCUGu -3'
miRNA:   3'- uGCCCGAGGA------------GUU-GGGGUGGcAGGGC- -5'
27222 3' -61.8 NC_005832.1 + 4782 0.68 0.464761
Target:  5'- uUGGGCacagugcguucucgUCgUCGGcCCCCGCCGaUCCCa -3'
miRNA:   3'- uGCCCG--------------AGgAGUU-GGGGUGGC-AGGGc -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.