miRNA display CGI


Results 1 - 17 of 17 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
7312 3' -56.6 NC_001900.1 + 36993 0.66 0.611528
Target:  5'- aGGuGCugUGGUcGAUgGAGGuCGGCAACc -3'
miRNA:   3'- cCCuCG--ACCGaCUA-CUCCuGCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 15107 0.66 0.589444
Target:  5'- uGGAGCcaccGGCUGGUcGAGcGuCGGCcACa -3'
miRNA:   3'- cCCUCGa---CCGACUA-CUC-CuGCCGuUG- -5'
7312 3' -56.6 NC_001900.1 + 28626 0.66 0.578452
Target:  5'- -uGGGCgUGGCUGAaGcGGACGGUuGCc -3'
miRNA:   3'- ccCUCG-ACCGACUaCuCCUGCCGuUG- -5'
7312 3' -56.6 NC_001900.1 + 1442 0.66 0.567505
Target:  5'- cGGuGAGU--GCUGGUcGcGGGCGGCGACc -3'
miRNA:   3'- -CC-CUCGacCGACUA-CuCCUGCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 15158 0.67 0.535015
Target:  5'- -cGAGUUcGGCUuc-GAGGGCGGCGAUu -3'
miRNA:   3'- ccCUCGA-CCGAcuaCUCCUGCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 10253 0.67 0.51161
Target:  5'- uGGGAagaggcgauGCgccuggccuaccGGCUGAUGaAGGGUGGCGACg -3'
miRNA:   3'- -CCCU---------CGa-----------CCGACUAC-UCCUGCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 38164 0.68 0.482459
Target:  5'- aGGAacuGCUGGauccGGUGGcacGGGCGGCAACc -3'
miRNA:   3'- cCCU---CGACCga--CUACU---CCUGCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 1259 0.68 0.462136
Target:  5'- cGGAGCUGGCggcgGGUucGGugguucgacCGGCAGCc -3'
miRNA:   3'- cCCUCGACCGa---CUAcuCCu--------GCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 46139 0.68 0.452145
Target:  5'- -cGAGCUGGUcGAUGAccaGGccguugcgcgaaGCGGCAGCu -3'
miRNA:   3'- ccCUCGACCGaCUACU---CC------------UGCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 46181 0.69 0.413409
Target:  5'- -cGAGgUGGUcGAUGAGGAucUGGCGAUg -3'
miRNA:   3'- ccCUCgACCGaCUACUCCU--GCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 21309 0.69 0.404049
Target:  5'- cGGcGAGCUGGCUGuUGAuGAacgaGGuCAGCa -3'
miRNA:   3'- -CC-CUCGACCGACuACUcCUg---CC-GUUG- -5'
7312 3' -56.6 NC_001900.1 + 39813 0.69 0.385735
Target:  5'- uGGAuGCUGGCUGAcccGGAgcUGGCGGCu -3'
miRNA:   3'- cCCU-CGACCGACUacuCCU--GCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 10625 0.7 0.376786
Target:  5'- uGGGAGCUGGC--GUGGGGuuGGgGGa -3'
miRNA:   3'- -CCCUCGACCGacUACUCCugCCgUUg -5'
7312 3' -56.6 NC_001900.1 + 29387 0.71 0.295213
Target:  5'- uGGGGCUcgcucuacgGcGCUGAuuacUGAGGAgGGCAACu -3'
miRNA:   3'- cCCUCGA---------C-CGACU----ACUCCUgCCGUUG- -5'
7312 3' -56.6 NC_001900.1 + 24588 0.72 0.253234
Target:  5'- cGGAGCUGGC-GGUGGuGGACaaGGCAu- -3'
miRNA:   3'- cCCUCGACCGaCUACU-CCUG--CCGUug -5'
7312 3' -56.6 NC_001900.1 + 9224 0.74 0.189119
Target:  5'- gGGGAGCgGGCUGucaucGGACGGCcACc -3'
miRNA:   3'- -CCCUCGaCCGACuacu-CCUGCCGuUG- -5'
7312 3' -56.6 NC_001900.1 + 22014 1.12 0.000322
Target:  5'- cGGGAGCUGGCUGAUGAGGACGGCAACa -3'
miRNA:   3'- -CCCUCGACCGACUACUCCUGCCGUUG- -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.