miRNA display CGI


Results 1 - 20 of 47 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
10716 3' -56.4 NC_002794.1 + 178352 1.09 0.003997
Target:  5'- gUGGCGACGAUGUACCGGUGAGGAGGAc -3'
miRNA:   3'- -ACCGCUGCUACAUGGCCACUCCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 94151 0.8 0.277595
Target:  5'- cGGCGGCGcUGga-CGGUGGGGGGGAc -3'
miRNA:   3'- aCCGCUGCuACaugGCCACUCCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 107546 0.75 0.482386
Target:  5'- cGGCGGCGAcg-ACCGcGgugGGGGAGGAg -3'
miRNA:   3'- aCCGCUGCUacaUGGC-Ca--CUCCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 115932 0.73 0.605264
Target:  5'- cGGCGGCGGgccggcccgccgcgUGUcGCCGGggaccgUGGGGGGGAg -3'
miRNA:   3'- aCCGCUGCU--------------ACA-UGGCC------ACUCCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 90978 0.72 0.668083
Target:  5'- cGGCGugGccucGUACCGGgccGAGGcGGAg -3'
miRNA:   3'- aCCGCugCua--CAUGGCCa--CUCCuCCU- -5'
10716 3' -56.4 NC_002794.1 + 94225 0.71 0.707515
Target:  5'- cGGCGACGGgcgGgcggGCCGGUGAcGGAc-- -3'
miRNA:   3'- aCCGCUGCUa--Ca---UGGCCACU-CCUccu -5'
10716 3' -56.4 NC_002794.1 + 146649 0.71 0.715302
Target:  5'- cGGCGACGAacacgagccguUGCUGGacGAGGAGGAc -3'
miRNA:   3'- aCCGCUGCUac---------AUGGCCa-CUCCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 101274 0.71 0.717242
Target:  5'- cGGCGcCGGUGgcggCGGcGGGGAGGAg -3'
miRNA:   3'- aCCGCuGCUACaug-GCCaCUCCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 140122 0.71 0.7269
Target:  5'- cGGuCGACGGUGgGCgGGUGGGGAa-- -3'
miRNA:   3'- aCC-GCUGCUACaUGgCCACUCCUccu -5'
10716 3' -56.4 NC_002794.1 + 129080 0.7 0.745973
Target:  5'- cUGGCGGCGGaccGU-CCGGUG-GGuGGAc -3'
miRNA:   3'- -ACCGCUGCUa--CAuGGCCACuCCuCCU- -5'
10716 3' -56.4 NC_002794.1 + 38435 0.7 0.745973
Target:  5'- aUGGCGGCGG---GCCGGacUGAGGAGc- -3'
miRNA:   3'- -ACCGCUGCUacaUGGCC--ACUCCUCcu -5'
10716 3' -56.4 NC_002794.1 + 79984 0.7 0.755372
Target:  5'- cGGCGACGAgga---GGcgGAGGAGGAc -3'
miRNA:   3'- aCCGCUGCUacauggCCa-CUCCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 65172 0.7 0.764667
Target:  5'- gUGGCGcCGAgaccggcggGUGCCGGcGAGGucGGAc -3'
miRNA:   3'- -ACCGCuGCUa--------CAUGGCCaCUCCu-CCU- -5'
10716 3' -56.4 NC_002794.1 + 109111 0.7 0.768354
Target:  5'- cGGCGGuuucgGUGCCGGUguuuccgaacggaccGAGGAGGGg -3'
miRNA:   3'- aCCGCUgcua-CAUGGCCA---------------CUCCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 139516 0.7 0.77385
Target:  5'- aUGGCGAUGA---ACCaGGUGAGcccGAGGAu -3'
miRNA:   3'- -ACCGCUGCUacaUGG-CCACUC---CUCCU- -5'
10716 3' -56.4 NC_002794.1 + 94050 0.7 0.77385
Target:  5'- cGGCGGCGGUGcgggGgCGGcGGGGGGcGAg -3'
miRNA:   3'- aCCGCUGCUACa---UgGCCaCUCCUC-CU- -5'
10716 3' -56.4 NC_002794.1 + 120051 0.7 0.782913
Target:  5'- cGGCGGCGGUGgcgGCCGcG-GAGGccGAc -3'
miRNA:   3'- aCCGCUGCUACa--UGGC-CaCUCCucCU- -5'
10716 3' -56.4 NC_002794.1 + 126735 0.7 0.795382
Target:  5'- gUGGgGACGGUGggaCGGUGGuggugucgggaacguGGGGGAa -3'
miRNA:   3'- -ACCgCUGCUACaugGCCACU---------------CCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 149509 0.69 0.79977
Target:  5'- aUGGUGACGggGUcgucGCCGG-GAgcggaccuggggcGGAGGAu -3'
miRNA:   3'- -ACCGCUGCuaCA----UGGCCaCU-------------CCUCCU- -5'
10716 3' -56.4 NC_002794.1 + 120139 0.69 0.809295
Target:  5'- cGGgGACGGgccgGUGCCGGacGAcGAGGAc -3'
miRNA:   3'- aCCgCUGCUa---CAUGGCCa-CUcCUCCU- -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.