miRNA display CGI


Results 1 - 20 of 30 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
23169 3' -58.4 NC_005178.1 + 35663 1.07 0.000345
Target:  5'- cACCUACGCCGGCCUCACAUCCAGCAGu -3'
miRNA:   3'- -UGGAUGCGGCCGGAGUGUAGGUCGUC- -5'
23169 3' -58.4 NC_005178.1 + 20869 0.75 0.10198
Target:  5'- uGCCUGCGCCGGCCUgAUcgCC--CAGg -3'
miRNA:   3'- -UGGAUGCGGCCGGAgUGuaGGucGUC- -5'
23169 3' -58.4 NC_005178.1 + 12769 0.74 0.114378
Target:  5'- cCCUGCGCCGcGCCU-ACGUCCucgaccGGCAGu -3'
miRNA:   3'- uGGAUGCGGC-CGGAgUGUAGG------UCGUC- -5'
23169 3' -58.4 NC_005178.1 + 23712 0.73 0.151765
Target:  5'- aACCUGCGaccuCGGCCUCG-AUCUGGCGGc -3'
miRNA:   3'- -UGGAUGCg---GCCGGAGUgUAGGUCGUC- -5'
23169 3' -58.4 NC_005178.1 + 27307 0.71 0.199381
Target:  5'- gGCCgaUGCGuCCGGCCaugUCGCGgacgguaUCCGGCAGc -3'
miRNA:   3'- -UGG--AUGC-GGCCGG---AGUGU-------AGGUCGUC- -5'
23169 3' -58.4 NC_005178.1 + 26966 0.7 0.23733
Target:  5'- uGCCggcuCGCuCGGCCgguugacaaucuccCAUAUCCAGCGGu -3'
miRNA:   3'- -UGGau--GCG-GCCGGa-------------GUGUAGGUCGUC- -5'
23169 3' -58.4 NC_005178.1 + 12131 0.69 0.272597
Target:  5'- cGCCUGCGCCGacgcacagacccgcGCCUaccgcgACGUCCuggAGCAGu -3'
miRNA:   3'- -UGGAUGCGGC--------------CGGAg-----UGUAGG---UCGUC- -5'
23169 3' -58.4 NC_005178.1 + 19373 0.69 0.274714
Target:  5'- uACCUGCGCgGGCugCUCAagaaagCCGGCAu -3'
miRNA:   3'- -UGGAUGCGgCCG--GAGUgua---GGUCGUc -5'
23169 3' -58.4 NC_005178.1 + 30814 0.69 0.274714
Target:  5'- gACCUGgGCCGGCgUCuacgcggcGCAUcagCCGGUAGa -3'
miRNA:   3'- -UGGAUgCGGCCGgAG--------UGUA---GGUCGUC- -5'
23169 3' -58.4 NC_005178.1 + 29251 0.69 0.281867
Target:  5'- gGCCgGCGCCGGCUUCA--UCCuGCc- -3'
miRNA:   3'- -UGGaUGCGGCCGGAGUguAGGuCGuc -5'
23169 3' -58.4 NC_005178.1 + 20689 0.69 0.281867
Target:  5'- uACCUcCG-CGGCUgaUCACAUCCAGgAGc -3'
miRNA:   3'- -UGGAuGCgGCCGG--AGUGUAGGUCgUC- -5'
23169 3' -58.4 NC_005178.1 + 30612 0.69 0.289166
Target:  5'- uGCCU-CGCCGGCUUU-CGUCUGGCu- -3'
miRNA:   3'- -UGGAuGCGGCCGGAGuGUAGGUCGuc -5'
23169 3' -58.4 NC_005178.1 + 23844 0.69 0.289166
Target:  5'- uCCUACGgaGGCCUCACAU--GGCAc -3'
miRNA:   3'- uGGAUGCggCCGGAGUGUAggUCGUc -5'
23169 3' -58.4 NC_005178.1 + 11665 0.68 0.31195
Target:  5'- gAUCUGCGCCGGCaacugcCGCAUggcCUGGCGGu -3'
miRNA:   3'- -UGGAUGCGGCCGga----GUGUA---GGUCGUC- -5'
23169 3' -58.4 NC_005178.1 + 14224 0.68 0.31195
Target:  5'- cCCaggGCGCCGGCaagggcCGCGUCUGGCAa -3'
miRNA:   3'- uGGa--UGCGGCCGga----GUGUAGGUCGUc -5'
23169 3' -58.4 NC_005178.1 + 22345 0.68 0.31195
Target:  5'- gACCUuccggcgUGCUGGCUUCGCGUucaCCAGCGa -3'
miRNA:   3'- -UGGAu------GCGGCCGGAGUGUA---GGUCGUc -5'
23169 3' -58.4 NC_005178.1 + 3331 0.68 0.319046
Target:  5'- uCCUGCGaCGGCCaCACGuucgacgccgaggUCCAGCAc -3'
miRNA:   3'- uGGAUGCgGCCGGaGUGU-------------AGGUCGUc -5'
23169 3' -58.4 NC_005178.1 + 2578 0.67 0.335246
Target:  5'- gGCCaGCG-CGGCCaaguaggacgcgcUCACGUCCAGgAGc -3'
miRNA:   3'- -UGGaUGCgGCCGG-------------AGUGUAGGUCgUC- -5'
23169 3' -58.4 NC_005178.1 + 24320 0.67 0.344409
Target:  5'- uGCCgACGCCGGCCcCGac-CCAGCc- -3'
miRNA:   3'- -UGGaUGCGGCCGGaGUguaGGUCGuc -5'
23169 3' -58.4 NC_005178.1 + 20751 0.67 0.361526
Target:  5'- uCCUGgGCCGGCaggCugG-CCAGCAc -3'
miRNA:   3'- uGGAUgCGGCCGga-GugUaGGUCGUc -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.