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
2948 3' -62.5 NC_001493.1 + 93813 0.66 0.621007
Target:  5'- gGCGGGCgCGAccugcagGGCCGCuccgcaaGCGGucGUCCCc -3'
miRNA:   3'- -UGCUCG-GCU-------CCGGCGc------CGUCu-CAGGG- -5'
2948 3' -62.5 NC_001493.1 + 12902 0.66 0.612153
Target:  5'- -gGAGUgGGGGUCuCGGUGGAGagcgCCCg -3'
miRNA:   3'- ugCUCGgCUCCGGcGCCGUCUCa---GGG- -5'
2948 3' -62.5 NC_001493.1 + 128456 0.66 0.612153
Target:  5'- -gGAGUgGGGGUCuCGGUGGAGagcgCCCg -3'
miRNA:   3'- ugCUCGgCUCCGGcGCCGUCUCa---GGG- -5'
2948 3' -62.5 NC_001493.1 + 26220 0.66 0.612153
Target:  5'- cCGGGCUGGGGCCGaaacccgGGCccgucuGGGUcgaCCCg -3'
miRNA:   3'- uGCUCGGCUCCGGCg------CCGu-----CUCA---GGG- -5'
2948 3' -62.5 NC_001493.1 + 18621 0.66 0.612153
Target:  5'- aACGGGCCccgaguacGAcGGCCGCGucgaGCGacccGAGUCUCa -3'
miRNA:   3'- -UGCUCGG--------CU-CCGGCGC----CGU----CUCAGGG- -5'
2948 3' -62.5 NC_001493.1 + 88952 0.66 0.61117
Target:  5'- aGCGAGUCGAGGCCGUccgugucaucgaaGGC-GAG-Ca- -3'
miRNA:   3'- -UGCUCGGCUCCGGCG-------------CCGuCUCaGgg -5'
2948 3' -62.5 NC_001493.1 + 22583 0.66 0.609204
Target:  5'- -aGGGUCGAgcacucaucacgcgGGCCGcCGGUAG-GUCCg -3'
miRNA:   3'- ugCUCGGCU--------------CCGGC-GCCGUCuCAGGg -5'
2948 3' -62.5 NC_001493.1 + 29029 0.66 0.602329
Target:  5'- cCGAGCCGcuuGGCgGCGGCuuccAGcUCCa -3'
miRNA:   3'- uGCUCGGCu--CCGgCGCCGuc--UC-AGGg -5'
2948 3' -62.5 NC_001493.1 + 111554 0.66 0.602329
Target:  5'- cGCGAGCgGucuCCGCGaGCAGcgcgucaaAGUCCCc -3'
miRNA:   3'- -UGCUCGgCuccGGCGC-CGUC--------UCAGGG- -5'
2948 3' -62.5 NC_001493.1 + 61456 0.66 0.592524
Target:  5'- uACGGGCuCGGGGCuuauagcgCGCGGCuguucggccggGGuGUCCa -3'
miRNA:   3'- -UGCUCG-GCUCCG--------GCGCCG-----------UCuCAGGg -5'
2948 3' -62.5 NC_001493.1 + 30825 0.66 0.582747
Target:  5'- gACGGGCCGGuGGUCG-GGgGGAG-CaCCa -3'
miRNA:   3'- -UGCUCGGCU-CCGGCgCCgUCUCaG-GG- -5'
2948 3' -62.5 NC_001493.1 + 5309 0.66 0.573002
Target:  5'- gUGGGauGAGGaCGUGGCGGGGgcaCCCg -3'
miRNA:   3'- uGCUCggCUCCgGCGCCGUCUCa--GGG- -5'
2948 3' -62.5 NC_001493.1 + 120863 0.66 0.573002
Target:  5'- gUGGGauGAGGaCGUGGCGGGGgcaCCCg -3'
miRNA:   3'- uGCUCggCUCCgGCGCCGUCUCa--GGG- -5'
2948 3' -62.5 NC_001493.1 + 8566 0.66 0.572029
Target:  5'- cCGcAGCCGaAGGUC-CGGguguccacgucauCAGAGUCCCc -3'
miRNA:   3'- uGC-UCGGC-UCCGGcGCC-------------GUCUCAGGG- -5'
2948 3' -62.5 NC_001493.1 + 124121 0.66 0.572029
Target:  5'- cCGcAGCCGaAGGUC-CGGguguccacgucauCAGAGUCCCc -3'
miRNA:   3'- uGC-UCGGC-UCCGGcGCC-------------GUCUCAGGG- -5'
2948 3' -62.5 NC_001493.1 + 114000 0.67 0.563296
Target:  5'- cCGGGCCauguGcGCCGCGaauGGGGUCCCg -3'
miRNA:   3'- uGCUCGGcu--C-CGGCGCcg-UCUCAGGG- -5'
2948 3' -62.5 NC_001493.1 + 4718 0.67 0.562328
Target:  5'- uUGGGCacaccCGGGGgCGCGGCAGcggcgggGGUCaCCg -3'
miRNA:   3'- uGCUCG-----GCUCCgGCGCCGUC-------UCAG-GG- -5'
2948 3' -62.5 NC_001493.1 + 50557 0.67 0.553634
Target:  5'- uUGGGCgGAcGaGCCcguGUGGCuGGGUCCCg -3'
miRNA:   3'- uGCUCGgCU-C-CGG---CGCCGuCUCAGGG- -5'
2948 3' -62.5 NC_001493.1 + 118475 0.67 0.552671
Target:  5'- gGCGuauuuaCCGAGGCCGUuaccagccaggucGGCGGGGgugagguucuUCCCg -3'
miRNA:   3'- -UGCuc----GGCUCCGGCG-------------CCGUCUC----------AGGG- -5'
2948 3' -62.5 NC_001493.1 + 2921 0.67 0.552671
Target:  5'- gGCGuauuuaCCGAGGCCGUuaccagccaggucGGCGGGGgugagguucuUCCCg -3'
miRNA:   3'- -UGCuc----GGCUCCGGCG-------------CCGUCUC----------AGGG- -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.