miRNA display CGI


Results 1 - 20 of 57 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
19243 3' -58.5 NC_004684.1 + 13984 0.67 0.498637
Target:  5'- gGcGCAGGCcagcccgGCCACCUGGAcACGGugcaGUGg -3'
miRNA:   3'- aC-CGUCCG-------UGGUGGACCU-UGCUc---CAC- -5'
19243 3' -58.5 NC_004684.1 + 62022 0.69 0.403959
Target:  5'- gGGaCGGGgGCCACggGGuugAGCGGGGUGg -3'
miRNA:   3'- aCC-GUCCgUGGUGgaCC---UUGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 21217 0.68 0.440882
Target:  5'- cGcGCAGGCGCUucacuucuggugGCgUGGccGCGAGGUGu -3'
miRNA:   3'- aC-CGUCCGUGG------------UGgACCu-UGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 53728 0.68 0.450409
Target:  5'- cGGCAuGGUGCCggguucgacgGCCaGGAAcacCGAGGUGg -3'
miRNA:   3'- aCCGU-CCGUGG----------UGGaCCUU---GCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 61308 0.68 0.454251
Target:  5'- cGGCA-GCACCGCCgccGGGccgccgcccucggcgGCGuAGGUGg -3'
miRNA:   3'- aCCGUcCGUGGUGGa--CCU---------------UGC-UCCAC- -5'
19243 3' -58.5 NC_004684.1 + 47426 0.68 0.460048
Target:  5'- cUGGUgcuccGGCACCACCUGGucGCgcagcucgcuGAGGUa -3'
miRNA:   3'- -ACCGu----CCGUGGUGGACCu-UG----------CUCCAc -5'
19243 3' -58.5 NC_004684.1 + 19692 0.68 0.469795
Target:  5'- cGGCaAGGCcugGCCgagccaagACCUGGGACGGccacucGGUGa -3'
miRNA:   3'- aCCG-UCCG---UGG--------UGGACCUUGCU------CCAC- -5'
19243 3' -58.5 NC_004684.1 + 12978 0.68 0.479647
Target:  5'- cGGCAGGCAaCACCgagcgccGGGCcGGGUGg -3'
miRNA:   3'- aCCGUCCGUgGUGGac-----CUUGcUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 6968 0.67 0.489599
Target:  5'- cGGCAacGGCAaCGCCaaGAagACGAGGUGa -3'
miRNA:   3'- aCCGU--CCGUgGUGGacCU--UGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 40323 0.69 0.395037
Target:  5'- cGGCAGGCACgACCUcGGcGCuGGGc- -3'
miRNA:   3'- aCCGUCCGUGgUGGA-CCuUGcUCCac -5'
19243 3' -58.5 NC_004684.1 + 58811 0.69 0.377582
Target:  5'- cGGUAGGUGCCGCCUcGGAugucCGGGaUGa -3'
miRNA:   3'- aCCGUCCGUGGUGGA-CCUu---GCUCcAC- -5'
19243 3' -58.5 NC_004684.1 + 49404 0.7 0.369051
Target:  5'- cGGuCAGcGcCACCACCUGGAGCuuGGa- -3'
miRNA:   3'- aCC-GUC-C-GUGGUGGACCUUGcuCCac -5'
19243 3' -58.5 NC_004684.1 + 17542 0.74 0.209943
Target:  5'- gUGGUcgccuaccAGG-ACCGCCUGGA-CGAGGUGc -3'
miRNA:   3'- -ACCG--------UCCgUGGUGGACCUuGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 30669 0.74 0.209943
Target:  5'- gGuGCGGGCauACCACCUGGAagGCGAcacgcucacgccGGUGg -3'
miRNA:   3'- aC-CGUCCG--UGGUGGACCU--UGCU------------CCAC- -5'
19243 3' -58.5 NC_004684.1 + 2272 0.71 0.283438
Target:  5'- cGGCGGGCAUUgccgccaGCCUGGGccACGAcgcGGUGc -3'
miRNA:   3'- aCCGUCCGUGG-------UGGACCU--UGCU---CCAC- -5'
19243 3' -58.5 NC_004684.1 + 6864 0.71 0.284135
Target:  5'- gUGGUGGuGCugCACuggcuCUGGGGCGAGGUc -3'
miRNA:   3'- -ACCGUC-CGugGUG-----GACCUUGCUCCAc -5'
19243 3' -58.5 NC_004684.1 + 12057 0.71 0.305658
Target:  5'- aGGC-GGC-UCGCCUGGccgccgagcgcGACGAGGUGc -3'
miRNA:   3'- aCCGuCCGuGGUGGACC-----------UUGCUCCAC- -5'
19243 3' -58.5 NC_004684.1 + 22186 0.7 0.34426
Target:  5'- cGGCGgcGGCgACCGCCUucGGAcugGCGcAGGUGg -3'
miRNA:   3'- aCCGU--CCG-UGGUGGA--CCU---UGC-UCCAC- -5'
19243 3' -58.5 NC_004684.1 + 47217 0.7 0.369051
Target:  5'- gUGGUAGGUaugcaucagcgcACCGCCUcGGGcGCGAGGg- -3'
miRNA:   3'- -ACCGUCCG------------UGGUGGA-CCU-UGCUCCac -5'
19243 3' -58.5 NC_004684.1 + 38812 0.7 0.369051
Target:  5'- cGGCGGuGC-CCGCCUGGcggugcccGACGGccuGGUGg -3'
miRNA:   3'- aCCGUC-CGuGGUGGACC--------UUGCU---CCAC- -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.