miRNA display CGI


Results 1 - 20 of 62 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
19561 3' -62.5 NC_004686.1 + 56151 0.66 0.322949
Target:  5'- gUCGCGGGuCCACcggucgcgGGUGCCGaaCCGCCAGg -3'
miRNA:   3'- aGGCGUUC-GGUG--------CCGUGGC--GGCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 55208 0.77 0.048622
Target:  5'- aCCGCAAGuCCAuCGGCGCCGucaacaucgucucCCGCCAAu -3'
miRNA:   3'- aGGCGUUC-GGU-GCCGUGGC-------------GGCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 54845 0.67 0.293466
Target:  5'- uUCCGUGA-CCGCGGUaaggacccgcGCCGgcCCGCCAAc -3'
miRNA:   3'- -AGGCGUUcGGUGCCG----------UGGC--GGCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 51737 0.66 0.319904
Target:  5'- uUCCGCu-GCgGCGGCACCGaccucuucagggaCGUCGg -3'
miRNA:   3'- -AGGCGuuCGgUGCCGUGGCg------------GCGGUu -5'
19561 3' -62.5 NC_004686.1 + 51078 0.69 0.190874
Target:  5'- gUCGCAuAGCgGCGGCAuucucguCCGCCGCgAGg -3'
miRNA:   3'- aGGCGU-UCGgUGCCGU-------GGCGGCGgUU- -5'
19561 3' -62.5 NC_004686.1 + 49962 0.67 0.293466
Target:  5'- aUCGUuucGCCGCGGCcuUCGUCGCCGg -3'
miRNA:   3'- aGGCGuu-CGGUGCCGu-GGCGGCGGUu -5'
19561 3' -62.5 NC_004686.1 + 49677 0.68 0.223288
Target:  5'- gCCGCGAGCaCGCaGCGCaUGUgGCCGAg -3'
miRNA:   3'- aGGCGUUCG-GUGcCGUG-GCGgCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 48901 0.67 0.272762
Target:  5'- -aCGCGgacGGCgCACGGaaucugGCCGCCGCCc- -3'
miRNA:   3'- agGCGU---UCG-GUGCCg-----UGGCGGCGGuu -5'
19561 3' -62.5 NC_004686.1 + 47892 0.69 0.206797
Target:  5'- aUCCGCccccgcGCCAaaGCGCCcguaGCCGCCAAc -3'
miRNA:   3'- -AGGCGuu----CGGUgcCGUGG----CGGCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 47329 0.66 0.338499
Target:  5'- uUCCGCA-GCCGaaccGCGCCaCCGUCGAg -3'
miRNA:   3'- -AGGCGUuCGGUgc--CGUGGcGGCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 43727 0.66 0.330657
Target:  5'- -aCGUuGGUCGCGGCacgcaaccuggGCCGCCGCg-- -3'
miRNA:   3'- agGCGuUCGGUGCCG-----------UGGCGGCGguu -5'
19561 3' -62.5 NC_004686.1 + 42934 0.73 0.109248
Target:  5'- aCCGCAGGCCccgggcucucgGCGGCucUCGCCGCgAAg -3'
miRNA:   3'- aGGCGUUCGG-----------UGCCGu-GGCGGCGgUU- -5'
19561 3' -62.5 NC_004686.1 + 42872 0.66 0.32833
Target:  5'- gUCCGCcuGCCugGcuuccaacuccugaGCcCgCGCCGCCAAc -3'
miRNA:   3'- -AGGCGuuCGGugC--------------CGuG-GCGGCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 39846 0.69 0.214358
Target:  5'- aCCGUc-GCCGCGGCguccguguaggaggcGCCGUCGUCGAg -3'
miRNA:   3'- aGGCGuuCGGUGCCG---------------UGGCGGCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 39450 0.67 0.300635
Target:  5'- --gGCAGGCCACGaucucggcGCAuuuCCGCgGCCAGg -3'
miRNA:   3'- aggCGUUCGGUGC--------CGU---GGCGgCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 37908 0.69 0.190874
Target:  5'- gCCGCAuggGGCgACGGC-CCGCCuaucucagaacaaGCCAGc -3'
miRNA:   3'- aGGCGU---UCGgUGCCGuGGCGG-------------CGGUU- -5'
19561 3' -62.5 NC_004686.1 + 35155 0.68 0.234893
Target:  5'- aUCCGUAAGaCCGgugGGUA-CGCCGCCGAu -3'
miRNA:   3'- -AGGCGUUC-GGUg--CCGUgGCGGCGGUU- -5'
19561 3' -62.5 NC_004686.1 + 34732 0.67 0.277486
Target:  5'- gUUCGCcGGCUACGGCaACCGCaaggaacgucucuaCGCCu- -3'
miRNA:   3'- -AGGCGuUCGGUGCCG-UGGCG--------------GCGGuu -5'
19561 3' -62.5 NC_004686.1 + 32467 0.67 0.266125
Target:  5'- aCCGCGaucGGCCGCGGCGa-GCggagaGCCGAg -3'
miRNA:   3'- aGGCGU---UCGGUGCCGUggCGg----CGGUU- -5'
19561 3' -62.5 NC_004686.1 + 32387 0.67 0.266125
Target:  5'- cUCCGCucGCCGCGGCcgAUCGCgGUg-- -3'
miRNA:   3'- -AGGCGuuCGGUGCCG--UGGCGgCGguu -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.