miRNA display CGI


Results 1 - 18 of 18 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
990 5' -54.8 NC_000902.1 + 662 0.66 0.785539
Target:  5'- aGCCaCUGuCCAGAGGuuuuuggucuguugAUgAUGGCAGGCa -3'
miRNA:   3'- -CGGcGGC-GGUCUCU--------------UA-UACUGUCCGg -5'
990 5' -54.8 NC_000902.1 + 50249 0.66 0.778614
Target:  5'- gGCgCGuuGCCAcGGGcaa--GGCGGGCCu -3'
miRNA:   3'- -CG-GCggCGGU-CUCuuauaCUGUCCGG- -5'
990 5' -54.8 NC_000902.1 + 3983 0.66 0.778614
Target:  5'- uGCCGCUGCauaccGGUAUGGCGGcGCUu -3'
miRNA:   3'- -CGGCGGCGgucucUUAUACUGUC-CGG- -5'
990 5' -54.8 NC_000902.1 + 50436 0.67 0.714489
Target:  5'- cGCCGCugguCGCCAGGGGGaaacacucgaggGUGACAuGGUUc -3'
miRNA:   3'- -CGGCG----GCGGUCUCUUa-----------UACUGU-CCGG- -5'
990 5' -54.8 NC_000902.1 + 42242 0.67 0.695172
Target:  5'- aUUGUCGCCGGAaaaGAcaGUGaagGCAGGCCu -3'
miRNA:   3'- cGGCGGCGGUCU---CUuaUAC---UGUCCGG- -5'
990 5' -54.8 NC_000902.1 + 13161 0.67 0.695172
Target:  5'- uGgCGCaaaGCCGGAGuGAUAacccgccagcuUGACGGGCa -3'
miRNA:   3'- -CgGCGg--CGGUCUC-UUAU-----------ACUGUCCGg -5'
990 5' -54.8 NC_000902.1 + 31973 0.67 0.695172
Target:  5'- gGCUGCCGCCucag---GUG-CAGGCUg -3'
miRNA:   3'- -CGGCGGCGGucucuuaUACuGUCCGG- -5'
990 5' -54.8 NC_000902.1 + 48929 0.68 0.666941
Target:  5'- uGCUGCCGCCAuugcacucugccccuGugcacuuacaguGGAAUggGUGAuCAGGCCc -3'
miRNA:   3'- -CGGCGGCGGU---------------C------------UCUUA--UACU-GUCCGG- -5'
990 5' -54.8 NC_000902.1 + 47891 0.68 0.662574
Target:  5'- uCCGUauucaaaaGCCAGGGGGga--ACAGGCCa -3'
miRNA:   3'- cGGCGg-------CGGUCUCUUauacUGUCCGG- -5'
990 5' -54.8 NC_000902.1 + 46359 0.68 0.628624
Target:  5'- aGCCGaacaggaUCGCCAGAuGAAUAuucUGACGGGg- -3'
miRNA:   3'- -CGGC-------GGCGGUCU-CUUAU---ACUGUCCgg -5'
990 5' -54.8 NC_000902.1 + 30831 0.69 0.596885
Target:  5'- cGUCGCCGCUGGAuGGAUAccGAUgAGGCa -3'
miRNA:   3'- -CGGCGGCGGUCU-CUUAUa-CUG-UCCGg -5'
990 5' -54.8 NC_000902.1 + 51899 0.7 0.549269
Target:  5'- uGCCGCCGCCuuacccuuaccacGGGcaccaaAUGcCAGGCCa -3'
miRNA:   3'- -CGGCGGCGGu------------CUCuua---UACuGUCCGG- -5'
990 5' -54.8 NC_000902.1 + 5704 0.7 0.541792
Target:  5'- aGCCGCUGUgcuuuCAGGGGAUuucUGAUaacagaaAGGCCg -3'
miRNA:   3'- -CGGCGGCG-----GUCUCUUAu--ACUG-------UCCGG- -5'
990 5' -54.8 NC_000902.1 + 28452 0.71 0.490539
Target:  5'- -aCGCCGCCAGAGAuaaacuCAGaGCUg -3'
miRNA:   3'- cgGCGGCGGUCUCUuauacuGUC-CGG- -5'
990 5' -54.8 NC_000902.1 + 12504 0.71 0.460292
Target:  5'- aGCCGaaGCCAGAGAGgcaagaAGGCUa -3'
miRNA:   3'- -CGGCggCGGUCUCUUauacugUCCGG- -5'
990 5' -54.8 NC_000902.1 + 54139 0.72 0.440685
Target:  5'- cCCGUCGCCGuGAGcuUAUccGugAGGCCg -3'
miRNA:   3'- cGGCGGCGGU-CUCuuAUA--CugUCCGG- -5'
990 5' -54.8 NC_000902.1 + 53053 0.74 0.318079
Target:  5'- -aCGCCGCguGAGGAUGgcGCGGGCg -3'
miRNA:   3'- cgGCGGCGguCUCUUAUacUGUCCGg -5'
990 5' -54.8 NC_000902.1 + 40527 1.14 0.000613
Target:  5'- uGCCGCCGCCAGAGAAUAUGACAGGCCu -3'
miRNA:   3'- -CGGCGGCGGUCUCUUAUACUGUCCGG- -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.