miRNA display CGI


Results 1 - 20 of 29 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
29135 5' -57.6 NC_006146.1 + 15809 0.66 0.878089
Target:  5'- -uUCCUgacCUCCCUgaucugGCCCGgcaucGAGCCGa -3'
miRNA:   3'- ucGGGA---GAGGGAa-----CGGGCaa---CUUGGC- -5'
29135 5' -57.6 NC_006146.1 + 33523 0.66 0.878089
Target:  5'- cGGCCUccCUCCCUagguugUGCCCGgcuuGCCu -3'
miRNA:   3'- -UCGGGa-GAGGGA------ACGGGCaacuUGGc -5'
29135 5' -57.6 NC_006146.1 + 149502 0.66 0.870964
Target:  5'- uGCCCUCUCugagguCCgcauagGCCuCGUUGAggaugucgaugACCGg -3'
miRNA:   3'- uCGGGAGAG------GGaa----CGG-GCAACU-----------UGGC- -5'
29135 5' -57.6 NC_006146.1 + 125777 0.66 0.856098
Target:  5'- aAGCCCaaggCUCCCggcgGUcaCCGgccGAGCCGg -3'
miRNA:   3'- -UCGGGa---GAGGGaa--CG--GGCaa-CUUGGC- -5'
29135 5' -57.6 NC_006146.1 + 2759 0.66 0.848368
Target:  5'- cGGCCCUCgcaggCCCaaGCCCGgaugucaggGAagacGCCa -3'
miRNA:   3'- -UCGGGAGa----GGGaaCGGGCaa-------CU----UGGc -5'
29135 5' -57.6 NC_006146.1 + 5185 0.66 0.847585
Target:  5'- aGGCCCgagacguUUUCCCUggGCCUGgggGAGCUa -3'
miRNA:   3'- -UCGGG-------AGAGGGAa-CGGGCaa-CUUGGc -5'
29135 5' -57.6 NC_006146.1 + 74255 0.67 0.840449
Target:  5'- cGGCCgUCUCCCcgggcugGCCaaa-GAGCCGg -3'
miRNA:   3'- -UCGGgAGAGGGaa-----CGGgcaaCUUGGC- -5'
29135 5' -57.6 NC_006146.1 + 73033 0.67 0.840449
Target:  5'- aGGCCCUCgUUCCacgGCCCG--GggUCGg -3'
miRNA:   3'- -UCGGGAG-AGGGaa-CGGGCaaCuuGGC- -5'
29135 5' -57.6 NC_006146.1 + 17264 0.67 0.832346
Target:  5'- uGCCCUCUgagcccCCUUUGCCCccUGGcagGCCa -3'
miRNA:   3'- uCGGGAGA------GGGAACGGGcaACU---UGGc -5'
29135 5' -57.6 NC_006146.1 + 14186 0.67 0.832346
Target:  5'- uGCCCUCUgagcccCCUUUGCCCccUGGcagGCCa -3'
miRNA:   3'- uCGGGAGA------GGGAACGGGcaACU---UGGc -5'
29135 5' -57.6 NC_006146.1 + 29576 0.67 0.832346
Target:  5'- uGCCCUCUgagcccCCUUUGCCCccUGGcagGCCa -3'
miRNA:   3'- uCGGGAGA------GGGAACGGGcaACU---UGGc -5'
29135 5' -57.6 NC_006146.1 + 26498 0.67 0.832346
Target:  5'- uGCCCUCUgagcccCCUUUGCCCccUGGcagGCCa -3'
miRNA:   3'- uCGGGAGA------GGGAACGGGcaACU---UGGc -5'
29135 5' -57.6 NC_006146.1 + 20342 0.67 0.832346
Target:  5'- uGCCCUCUgagcccCCUUUGCCCccUGGcagGCCa -3'
miRNA:   3'- uCGGGAGA------GGGAACGGGcaACU---UGGc -5'
29135 5' -57.6 NC_006146.1 + 23420 0.67 0.832346
Target:  5'- uGCCCUCUgagcccCCUUUGCCCccUGGcagGCCa -3'
miRNA:   3'- uCGGGAGA------GGGAACGGGcaACU---UGGc -5'
29135 5' -57.6 NC_006146.1 + 75415 0.67 0.824067
Target:  5'- aGGCCUUCUCCCccgaguUUGaCCCGgagcucucaGAGCCc -3'
miRNA:   3'- -UCGGGAGAGGG------AAC-GGGCaa-------CUUGGc -5'
29135 5' -57.6 NC_006146.1 + 70994 0.67 0.80701
Target:  5'- gAGCCCgCUCUUgcGCCCGggGGgcagaggcGCCGg -3'
miRNA:   3'- -UCGGGaGAGGGaaCGGGCaaCU--------UGGC- -5'
29135 5' -57.6 NC_006146.1 + 113690 0.67 0.798248
Target:  5'- gGGCCCggcCUCCg--GCCCGggGAcggcggcggcaGCCGg -3'
miRNA:   3'- -UCGGGa--GAGGgaaCGGGCaaCU-----------UGGC- -5'
29135 5' -57.6 NC_006146.1 + 142986 0.67 0.798248
Target:  5'- cGCCCUagCCCUUGgCCGUggGAGCa- -3'
miRNA:   3'- uCGGGAgaGGGAACgGGCAa-CUUGgc -5'
29135 5' -57.6 NC_006146.1 + 64224 0.67 0.798248
Target:  5'- cAGCCCcagggaUCCCgUGCCCGggGAGaggaCGg -3'
miRNA:   3'- -UCGGGag----AGGGaACGGGCaaCUUg---GC- -5'
29135 5' -57.6 NC_006146.1 + 14252 0.68 0.761831
Target:  5'- cGCCCUCcUCCUUcCCCGUuUGAGgCGa -3'
miRNA:   3'- uCGGGAGaGGGAAcGGGCA-ACUUgGC- -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.