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
12495 3' -58.4 NC_003324.1 + 9728 0.66 0.587043
Target:  5'- cCCAGcGCguUGGCGuuGCCgGCGGUGuuGGCc -3'
miRNA:   3'- -GGUC-CG--ACCGCu-UGGgCGCUACc-UCG- -5'
12495 3' -58.4 NC_003324.1 + 35925 0.79 0.092763
Target:  5'- gCCAGGCgcaGGuCGAAUCCcUGAUGGAGCu -3'
miRNA:   3'- -GGUCCGa--CC-GCUUGGGcGCUACCUCG- -5'
12495 3' -58.4 NC_003324.1 + 28904 0.77 0.118758
Target:  5'- aCAGGCUGGCgucaagcgcaauGAGCgCGUGAugUGGGGCa -3'
miRNA:   3'- gGUCCGACCG------------CUUGgGCGCU--ACCUCG- -5'
12495 3' -58.4 NC_003324.1 + 15261 0.75 0.172898
Target:  5'- aCGGGCgGGUuugaucugcgGAACCgGCGAUGGAGa -3'
miRNA:   3'- gGUCCGaCCG----------CUUGGgCGCUACCUCg -5'
12495 3' -58.4 NC_003324.1 + 24994 0.75 0.177511
Target:  5'- aCCGGGC-GGCGuGCUgGCGAUGGuGGUg -3'
miRNA:   3'- -GGUCCGaCCGCuUGGgCGCUACC-UCG- -5'
12495 3' -58.4 NC_003324.1 + 3445 0.72 0.260714
Target:  5'- aCCAGGCUGccguuCGAuccAUCCGUGAagGGAGCc -3'
miRNA:   3'- -GGUCCGACc----GCU---UGGGCGCUa-CCUCG- -5'
12495 3' -58.4 NC_003324.1 + 41820 0.7 0.373074
Target:  5'- --uGGUUGGgGGugCCGUGGcgugaucgcaUGGAGCg -3'
miRNA:   3'- gguCCGACCgCUugGGCGCU----------ACCUCG- -5'
12495 3' -58.4 NC_003324.1 + 42483 0.69 0.399156
Target:  5'- gCUGGcGCUGuuGCGGACCCGCGAccaGGAuaccGCg -3'
miRNA:   3'- -GGUC-CGAC--CGCUUGGGCGCUa--CCU----CG- -5'
12495 3' -58.4 NC_003324.1 + 26991 0.69 0.408106
Target:  5'- -uGGGCgaaGGuCGAACCCuucuuccaucGCGAcaUGGAGCc -3'
miRNA:   3'- ggUCCGa--CC-GCUUGGG----------CGCU--ACCUCG- -5'
12495 3' -58.4 NC_003324.1 + 50933 0.68 0.463354
Target:  5'- gCCAuGCUgucgcugGGCGAACCgccugcaGCGAUGuGGGCg -3'
miRNA:   3'- -GGUcCGA-------CCGCUUGGg------CGCUAC-CUCG- -5'
12495 3' -58.4 NC_003324.1 + 2863 0.67 0.514101
Target:  5'- aCCAGGC-GGUaGACCUGCcaGAUcGGGCg -3'
miRNA:   3'- -GGUCCGaCCGcUUGGGCG--CUAcCUCG- -5'
12495 3' -58.4 NC_003324.1 + 20404 0.66 0.544992
Target:  5'- --cGGCgaUGGCGAACCC-CGAccGGaAGCu -3'
miRNA:   3'- gguCCG--ACCGCUUGGGcGCUa-CC-UCG- -5'
12495 3' -58.4 NC_003324.1 + 57040 0.66 0.576458
Target:  5'- -uGGGCUGGgGAGCggCgGCGAgGGcGCg -3'
miRNA:   3'- ggUCCGACCgCUUG--GgCGCUaCCuCG- -5'
12495 3' -58.4 NC_003324.1 + 56071 1.12 0.000329
Target:  5'- uCCAGGCUGGCGAACCCGCGAUGGAGCu -3'
miRNA:   3'- -GGUCCGACCGCUUGGGCGCUACCUCG- -5'
12495 3' -58.4 NC_003324.1 + 45364 0.66 0.587043
Target:  5'- gCAGGC-GGCGAGCa-GCGA-GG-GCc -3'
miRNA:   3'- gGUCCGaCCGCUUGggCGCUaCCuCG- -5'
12495 3' -58.4 NC_003324.1 + 26873 0.66 0.587043
Target:  5'- uUCAGGCUcaagGGUGAcGCCgggcuccauguCGCGAUGGAa- -3'
miRNA:   3'- -GGUCCGA----CCGCU-UGG-----------GCGCUACCUcg -5'
12495 3' -58.4 NC_003324.1 + 51157 0.66 0.576458
Target:  5'- uUCAGGCaGGUGAccugccgcgucaACCUGaCGAgcgGGGGUu -3'
miRNA:   3'- -GGUCCGaCCGCU------------UGGGC-GCUa--CCUCG- -5'
12495 3' -58.4 NC_003324.1 + 21119 0.66 0.570128
Target:  5'- gUCGGGCUGGCGcuugcgcagcaucucGGCCUcgucagugaGCGAgcgGGcGCg -3'
miRNA:   3'- -GGUCCGACCGC---------------UUGGG---------CGCUa--CCuCG- -5'
12495 3' -58.4 NC_003324.1 + 17716 0.67 0.514101
Target:  5'- aUCAGGCUGGCGAuACCCaucaGCaGGUuGaAGCc -3'
miRNA:   3'- -GGUCCGACCGCU-UGGG----CG-CUAcC-UCG- -5'
12495 3' -58.4 NC_003324.1 + 417 0.67 0.483948
Target:  5'- -uGGGCUGGCgcaucccgGAGCCCGCGAa----- -3'
miRNA:   3'- ggUCCGACCG--------CUUGGGCGCUaccucg -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.