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
18656 5' -60.7 NC_004682.1 + 6520 0.66 0.437819
Target:  5'- aGGCGCGGuGGU--CGUCGGCcaGGUGCu- -3'
miRNA:   3'- -CCGUGUC-CCGcuGUAGCCG--CCGCGuc -5'
18656 5' -60.7 NC_004682.1 + 36123 0.66 0.437819
Target:  5'- cGGCAU-GGGCGgu-UCGGagauguaccgGGCGCAGa -3'
miRNA:   3'- -CCGUGuCCCGCuguAGCCg---------CCGCGUC- -5'
18656 5' -60.7 NC_004682.1 + 15492 0.66 0.435007
Target:  5'- aGCGauGGGCGACAUCGcgcuGCGGaugaucgaacuuguCGCAGa -3'
miRNA:   3'- cCGUguCCCGCUGUAGC----CGCC--------------GCGUC- -5'
18656 5' -60.7 NC_004682.1 + 28094 0.66 0.428488
Target:  5'- cGCuCGGGcGUGGCugcucgcggCGGCGaGCGCGGa -3'
miRNA:   3'- cCGuGUCC-CGCUGua-------GCCGC-CGCGUC- -5'
18656 5' -60.7 NC_004682.1 + 27549 0.66 0.401214
Target:  5'- cGCuACGGcGGCGACAcUGGCGcuGCgGCAGa -3'
miRNA:   3'- cCG-UGUC-CCGCUGUaGCCGC--CG-CGUC- -5'
18656 5' -60.7 NC_004682.1 + 2959 0.67 0.375072
Target:  5'- ----uGGGGCG-CGggCGGCGGCGCuGg -3'
miRNA:   3'- ccgugUCCCGCuGUa-GCCGCCGCGuC- -5'
18656 5' -60.7 NC_004682.1 + 28763 0.67 0.366617
Target:  5'- cGCgAguGGGCGGCAUCGGCa-CGCc- -3'
miRNA:   3'- cCG-UguCCCGCUGUAGCCGccGCGuc -5'
18656 5' -60.7 NC_004682.1 + 34083 0.67 0.342051
Target:  5'- uGUACGucuccGGGuCGACGUUGGCGGUGaAGg -3'
miRNA:   3'- cCGUGU-----CCC-GCUGUAGCCGCCGCgUC- -5'
18656 5' -60.7 NC_004682.1 + 8950 0.68 0.325574
Target:  5'- uGCugGGGGaccgugacgccuaCGGCGUCGGgcCGGCGCu- -3'
miRNA:   3'- cCGugUCCC-------------GCUGUAGCC--GCCGCGuc -5'
18656 5' -60.7 NC_004682.1 + 16658 0.68 0.318696
Target:  5'- aGGCGCuGcGCGGCAugcgcUCgGGCGGCaGCGGu -3'
miRNA:   3'- -CCGUGuCcCGCUGU-----AG-CCGCCG-CGUC- -5'
18656 5' -60.7 NC_004682.1 + 30809 0.68 0.311181
Target:  5'- uGCcCAGcGGCGACuggcuggugCGGCGGUGCu- -3'
miRNA:   3'- cCGuGUC-CCGCUGua-------GCCGCCGCGuc -5'
18656 5' -60.7 NC_004682.1 + 27407 0.68 0.311181
Target:  5'- uGGC-CAcGGGCGGCAcaaUCGccguCGGCGCAc -3'
miRNA:   3'- -CCGuGU-CCCGCUGU---AGCc---GCCGCGUc -5'
18656 5' -60.7 NC_004682.1 + 16172 0.68 0.303802
Target:  5'- uGCGC--GGCGAgGUCGGCauuGGCGCGa -3'
miRNA:   3'- cCGUGucCCGCUgUAGCCG---CCGCGUc -5'
18656 5' -60.7 NC_004682.1 + 33552 0.68 0.296559
Target:  5'- cGCugGcGGCGGCAaCGGCGGCaGcCGGg -3'
miRNA:   3'- cCGugUcCCGCUGUaGCCGCCG-C-GUC- -5'
18656 5' -60.7 NC_004682.1 + 35195 0.68 0.296559
Target:  5'- cGCGCAGuGCGugGUggcCGGCGGUGUg- -3'
miRNA:   3'- cCGUGUCcCGCugUA---GCCGCCGCGuc -5'
18656 5' -60.7 NC_004682.1 + 573 0.7 0.24341
Target:  5'- -cUAUAGGGCGGCgcGUCGGUGaGCGCc- -3'
miRNA:   3'- ccGUGUCCCGCUG--UAGCCGC-CGCGuc -5'
18656 5' -60.7 NC_004682.1 + 20572 0.7 0.237354
Target:  5'- cGGCGacaugguccuuCGGGGCGugGUCgcuGGCGaGCGUGGu -3'
miRNA:   3'- -CCGU-----------GUCCCGCugUAG---CCGC-CGCGUC- -5'
18656 5' -60.7 NC_004682.1 + 39895 0.7 0.22562
Target:  5'- aGCGCAGccgaGGCAUCgGGCGGCGCGc -3'
miRNA:   3'- cCGUGUCccg-CUGUAG-CCGCCGCGUc -5'
18656 5' -60.7 NC_004682.1 + 474 0.72 0.165183
Target:  5'- cGGCcucCAGGGCcGCuucCGGCGGCGCu- -3'
miRNA:   3'- -CCGu--GUCCCGcUGua-GCCGCCGCGuc -5'
18656 5' -60.7 NC_004682.1 + 873 0.72 0.160864
Target:  5'- cGGC-CAGGGUGGCGuUCGGuCGGuCGCu- -3'
miRNA:   3'- -CCGuGUCCCGCUGU-AGCC-GCC-GCGuc -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.