miRNA display CGI


Results 1 - 15 of 15 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
7210 3' -53.3 NC_001900.1 + 44224 0.66 0.809065
Target:  5'- --cGACCGCCGuaccaGGCUGc-CGUCUGCAg -3'
miRNA:   3'- gcuUUGGUGGC-----CCGACcuGUAGAUGU- -5'
7210 3' -53.3 NC_001900.1 + 6848 0.66 0.789353
Target:  5'- gGGAGCCAUCGuGGUUGGcCAggUGCu -3'
miRNA:   3'- gCUUUGGUGGC-CCGACCuGUagAUGu -5'
7210 3' -53.3 NC_001900.1 + 36805 0.66 0.789353
Target:  5'- uCGGAACCAgcUCGGGCUuGACGUggUUGCc -3'
miRNA:   3'- -GCUUUGGU--GGCCCGAcCUGUA--GAUGu -5'
7210 3' -53.3 NC_001900.1 + 39288 0.66 0.788349
Target:  5'- gCGGGACCACCGGGaCcgcgccgagcccgUGGGgGUCg--- -3'
miRNA:   3'- -GCUUUGGUGGCCC-G-------------ACCUgUAGaugu -5'
7210 3' -53.3 NC_001900.1 + 20123 0.66 0.778214
Target:  5'- uGAAGCCACCGGacguagaGCUGcgcGACggcgacuuccGUCUGCGc -3'
miRNA:   3'- gCUUUGGUGGCC-------CGAC---CUG----------UAGAUGU- -5'
7210 3' -53.3 NC_001900.1 + 38251 0.67 0.747973
Target:  5'- gGAAGCU-CCGGGUggUGGA-GUCUGCGc -3'
miRNA:   3'- gCUUUGGuGGCCCG--ACCUgUAGAUGU- -5'
7210 3' -53.3 NC_001900.1 + 43997 0.67 0.701319
Target:  5'- gCGAGACCuucACCGGGCcaccggGGAUGUCcaucgucaucagcgUGCAa -3'
miRNA:   3'- -GCUUUGG---UGGCCCGa-----CCUGUAG--------------AUGU- -5'
7210 3' -53.3 NC_001900.1 + 6279 0.68 0.693575
Target:  5'- aGAu-CCACguCGGGCUGGACGcCUgGCAc -3'
miRNA:   3'- gCUuuGGUG--GCCCGACCUGUaGA-UGU- -5'
7210 3' -53.3 NC_001900.1 + 13102 0.68 0.671298
Target:  5'- uCGAGcACC-CCGGGCUGcgcGACGaguaccUCUACGa -3'
miRNA:   3'- -GCUU-UGGuGGCCCGAC---CUGU------AGAUGU- -5'
7210 3' -53.3 NC_001900.1 + 47753 0.69 0.585982
Target:  5'- gCGggGuCCAUCGGGCUGuuguagguccagucuGGCGUCUGg- -3'
miRNA:   3'- -GCuuU-GGUGGCCCGAC---------------CUGUAGAUgu -5'
7210 3' -53.3 NC_001900.1 + 16832 0.7 0.570393
Target:  5'- aCGGgcAACCACCGGGCgUGGcgguACGUCa--- -3'
miRNA:   3'- -GCU--UUGGUGGCCCG-ACC----UGUAGaugu -5'
7210 3' -53.3 NC_001900.1 + 15107 0.71 0.515713
Target:  5'- uGGAGCCACC-GGCUGGucgaGCGUCggccACAc -3'
miRNA:   3'- gCUUUGGUGGcCCGACC----UGUAGa---UGU- -5'
7210 3' -53.3 NC_001900.1 + 10773 0.71 0.494423
Target:  5'- gGAAGCUGCCgaccuGGGCcgGGACuUCUACGa -3'
miRNA:   3'- gCUUUGGUGG-----CCCGa-CCUGuAGAUGU- -5'
7210 3' -53.3 NC_001900.1 + 42685 0.72 0.443082
Target:  5'- uGAu-CCACCGGGgaGGugGUCaGCGu -3'
miRNA:   3'- gCUuuGGUGGCCCgaCCugUAGaUGU- -5'
7210 3' -53.3 NC_001900.1 + 18081 1.09 0.00129
Target:  5'- cCGAAACCACCGGGCUGGACAUCUACAg -3'
miRNA:   3'- -GCUUUGGUGGCCCGACCUGUAGAUGU- -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.