miRNA display CGI


Results 1 - 20 of 25 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
18301 3' -57.7 NC_004681.1 + 48871 0.66 0.719511
Target:  5'- uGCUGACggGCCUcUCGCGCcuGUcucacgucacGCGGGc -3'
miRNA:   3'- uCGACUG--UGGGaAGCGCGc-CA----------UGCCC- -5'
18301 3' -57.7 NC_004681.1 + 7455 0.66 0.709285
Target:  5'- gGGCuUGGCGggaggCUUCGcCGCGGcgGCGGGg -3'
miRNA:   3'- -UCG-ACUGUgg---GAAGC-GCGCCa-UGCCC- -5'
18301 3' -57.7 NC_004681.1 + 59550 0.66 0.69899
Target:  5'- uAGCUGACgccuccccagguGCCCUUCaugguuuggaGgGCGGUGaugaggUGGGg -3'
miRNA:   3'- -UCGACUG------------UGGGAAG----------CgCGCCAU------GCCC- -5'
18301 3' -57.7 NC_004681.1 + 60636 0.66 0.688636
Target:  5'- cGGCgUGACuACCCUUCGgccCGUcucGGU-CGGGa -3'
miRNA:   3'- -UCG-ACUG-UGGGAAGC---GCG---CCAuGCCC- -5'
18301 3' -57.7 NC_004681.1 + 18912 0.66 0.688636
Target:  5'- aGGCUGACuucACCCUcgggaUGgGUGGUuauCGGGc -3'
miRNA:   3'- -UCGACUG---UGGGAa----GCgCGCCAu--GCCC- -5'
18301 3' -57.7 NC_004681.1 + 69064 0.66 0.667789
Target:  5'- uGGCUG-CGCCUUUCa-GUGGUgcguacacGCGGGg -3'
miRNA:   3'- -UCGACuGUGGGAAGcgCGCCA--------UGCCC- -5'
18301 3' -57.7 NC_004681.1 + 8496 0.67 0.636312
Target:  5'- gAGCUGAUggGCgCCUUCGCGgaCGGUgagaccgcccccGCGGc -3'
miRNA:   3'- -UCGACUG--UG-GGAAGCGC--GCCA------------UGCCc -5'
18301 3' -57.7 NC_004681.1 + 37025 0.67 0.633158
Target:  5'- cGCUGACACuCCUUC-CGgccaucgccaggguCGGUgAUGGGg -3'
miRNA:   3'- uCGACUGUG-GGAAGcGC--------------GCCA-UGCCC- -5'
18301 3' -57.7 NC_004681.1 + 6682 0.67 0.625801
Target:  5'- cGGCccaUGGCGCCCUUgacggCGCGCaGGUGCuucGGu -3'
miRNA:   3'- -UCG---ACUGUGGGAA-----GCGCG-CCAUGc--CC- -5'
18301 3' -57.7 NC_004681.1 + 17377 0.67 0.625801
Target:  5'- gGGCgucgucuccggGAUACCCgccgccCGCGUaguugaGGUACGGGa -3'
miRNA:   3'- -UCGa----------CUGUGGGaa----GCGCG------CCAUGCCC- -5'
18301 3' -57.7 NC_004681.1 + 60193 0.68 0.595377
Target:  5'- aGGUgaucGGCACCCgcCGCGCGGggaucacgccuagugGCGGa -3'
miRNA:   3'- -UCGa---CUGUGGGaaGCGCGCCa--------------UGCCc -5'
18301 3' -57.7 NC_004681.1 + 60916 0.68 0.583889
Target:  5'- uGCUgGAC-CCCUUCGCGgGcaGCGGa -3'
miRNA:   3'- uCGA-CUGuGGGAAGCGCgCcaUGCCc -5'
18301 3' -57.7 NC_004681.1 + 34068 0.68 0.573484
Target:  5'- cGgUGACAaCCUUgGcCGCGG-ACGGGa -3'
miRNA:   3'- uCgACUGUgGGAAgC-GCGCCaUGCCC- -5'
18301 3' -57.7 NC_004681.1 + 5924 0.68 0.552811
Target:  5'- gGGCUGAgGCgCUucUCGUGCcgcaguaccaGGUugGGGc -3'
miRNA:   3'- -UCGACUgUGgGA--AGCGCG----------CCAugCCC- -5'
18301 3' -57.7 NC_004681.1 + 25241 0.7 0.47288
Target:  5'- cGGCcaUGGCGCCCgcggCG-GCGGUugGGu -3'
miRNA:   3'- -UCG--ACUGUGGGaa--GCgCGCCAugCCc -5'
18301 3' -57.7 NC_004681.1 + 17295 0.7 0.463285
Target:  5'- ---cGACGCCCUgcuggCGCGCGuGcccGCGGGa -3'
miRNA:   3'- ucgaCUGUGGGAa----GCGCGC-Ca--UGCCC- -5'
18301 3' -57.7 NC_004681.1 + 53615 0.7 0.463285
Target:  5'- gAGCuUGACGCCCgcgaugUCacCGCGGUcAUGGGu -3'
miRNA:   3'- -UCG-ACUGUGGGa-----AGc-GCGCCA-UGCCC- -5'
18301 3' -57.7 NC_004681.1 + 12856 0.7 0.463285
Target:  5'- gAGgUGGCAUCgCUgaucUCGCugGCGGUAUGGGu -3'
miRNA:   3'- -UCgACUGUGG-GA----AGCG--CGCCAUGCCC- -5'
18301 3' -57.7 NC_004681.1 + 3153 0.71 0.425973
Target:  5'- uGCgcagGACugccaccagGCCCUUgGCGCcgcgGGUGCGGGc -3'
miRNA:   3'- uCGa---CUG---------UGGGAAgCGCG----CCAUGCCC- -5'
18301 3' -57.7 NC_004681.1 + 63176 0.71 0.399193
Target:  5'- cGCUcGACACCCUgaugucCGCGgCGGagauCGGGa -3'
miRNA:   3'- uCGA-CUGUGGGAa-----GCGC-GCCau--GCCC- -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.