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
3099 3' -58.2 NC_001493.1 + 14814 0.66 0.809282
Target:  5'- gGGGCUGGcacguggagccccgcGuGGUCgUGCUgGAagaccugcucACGGCCg -3'
miRNA:   3'- -CUCGACC---------------CuCCAG-ACGAgCU----------UGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 130368 0.66 0.809282
Target:  5'- gGGGCUGGcacguggagccccgcGuGGUCgUGCUgGAagaccugcucACGGCCg -3'
miRNA:   3'- -CUCGACC---------------CuCCAG-ACGAgCU----------UGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 13508 0.66 0.805769
Target:  5'- gGGGggGGGAGGag-GCUCG--UGGCCa -3'
miRNA:   3'- -CUCgaCCCUCCagaCGAGCuuGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 129062 0.66 0.805769
Target:  5'- gGGGggGGGAGGag-GCUCG--UGGCCa -3'
miRNA:   3'- -CUCgaCCCUCCagaCGAGCuuGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 44472 0.66 0.800454
Target:  5'- cGAGC-GGuuccGGGGcCUGCUCGGgccggagaugguggcACGGCUa -3'
miRNA:   3'- -CUCGaCC----CUCCaGACGAGCU---------------UGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 15437 0.66 0.796881
Target:  5'- cGGacgGGGAGuUCUGCUUcggGGACGGCg -3'
miRNA:   3'- cUCga-CCCUCcAGACGAG---CUUGCCGg -5'
3099 3' -58.2 NC_001493.1 + 130991 0.66 0.796881
Target:  5'- cGGacgGGGAGuUCUGCUUcggGGACGGCg -3'
miRNA:   3'- cUCga-CCCUCcAGACGAG---CUUGCCGg -5'
3099 3' -58.2 NC_001493.1 + 23282 0.66 0.796881
Target:  5'- gGAGCUGGaGAGG-UUGUUggUGGAgGGUCa -3'
miRNA:   3'- -CUCGACC-CUCCaGACGA--GCUUgCCGG- -5'
3099 3' -58.2 NC_001493.1 + 114264 0.66 0.796881
Target:  5'- cGAGUUGGGuuauGGUUUGUUCcug-GGCCc -3'
miRNA:   3'- -CUCGACCCu---CCAGACGAGcuugCCGG- -5'
3099 3' -58.2 NC_001493.1 + 33057 0.66 0.796881
Target:  5'- cGAGCUcgGGGAGGUCUaCaCGAGCGcaCCc -3'
miRNA:   3'- -CUCGA--CCCUCCAGAcGaGCUUGCc-GG- -5'
3099 3' -58.2 NC_001493.1 + 54462 0.66 0.787845
Target:  5'- --cCUGGGAGaGUUcGCUCGAugGGa- -3'
miRNA:   3'- cucGACCCUC-CAGaCGAGCUugCCgg -5'
3099 3' -58.2 NC_001493.1 + 43424 0.66 0.775893
Target:  5'- gGAGCUugguauucucGGGAaGUCUGUggaucuccggggggUCGAucugcGCGGCCg -3'
miRNA:   3'- -CUCGA----------CCCUcCAGACG--------------AGCU-----UGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 52611 0.66 0.769367
Target:  5'- -uGCUGcuccGGAGGgugcUCUGCa-GGAUGGCCa -3'
miRNA:   3'- cuCGAC----CCUCC----AGACGagCUUGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 115687 0.67 0.750404
Target:  5'- uGGCgaGGGuGGGUCUGgaUcAACGGCCu -3'
miRNA:   3'- cUCGa-CCC-UCCAGACgaGcUUGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 55726 0.67 0.731029
Target:  5'- gGGGCUGGuGAGGUC-GCUaacggaGAGCGcGUg -3'
miRNA:   3'- -CUCGACC-CUCCAGaCGAg-----CUUGC-CGg -5'
3099 3' -58.2 NC_001493.1 + 102771 0.68 0.681266
Target:  5'- uGAGCUGGGucucauGGaCaaguggUGUUCGAGcCGGCCc -3'
miRNA:   3'- -CUCGACCCu-----CCaG------ACGAGCUU-GCCGG- -5'
3099 3' -58.2 NC_001493.1 + 85150 0.68 0.680256
Target:  5'- cAGC-GGGGGGugaccccugugauUCUGC-CGAgguuACGGCCg -3'
miRNA:   3'- cUCGaCCCUCC-------------AGACGaGCU----UGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 87719 0.68 0.661018
Target:  5'- uGAGCgccccGGGAGGUgaGCccgCGAcCGGCa -3'
miRNA:   3'- -CUCGa----CCCUCCAgaCGa--GCUuGCCGg -5'
3099 3' -58.2 NC_001493.1 + 102455 0.69 0.640678
Target:  5'- cGGGUcGGGGGGUCg---CGA-CGGCCg -3'
miRNA:   3'- -CUCGaCCCUCCAGacgaGCUuGCCGG- -5'
3099 3' -58.2 NC_001493.1 + 80510 0.69 0.59998
Target:  5'- cGGCUGGGAGGgucguccagCUGUUuaaCGuGCGGUCu -3'
miRNA:   3'- cUCGACCCUCCa--------GACGA---GCuUGCCGG- -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.