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 + 12769 0.74 0.114378
Target:  5'- cCCUGCGCCGcGCCU-ACGUCCucgaccGGCAGu -3'
miRNA:   3'- uGGAUGCGGC-CGGAgUGUAGG------UCGUC- -5'
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 + 34985 0.66 0.435688
Target:  5'- gGCC-GCGCUGGCCgaggCGCcgaCCAGCc- -3'
miRNA:   3'- -UGGaUGCGGCCGGa---GUGua-GGUCGuc -5'
23169 3' -58.4 NC_005178.1 + 16719 0.67 0.379226
Target:  5'- aGCCgGCGCCcuGGuCCUCGCAUcgcugcgcuggcCCAGguGa -3'
miRNA:   3'- -UGGaUGCGG--CC-GGAGUGUA------------GGUCguC- -5'
23169 3' -58.4 NC_005178.1 + 31422 0.67 0.370303
Target:  5'- gGCgCUGCcgauCUGGCCUgAUAUCCAGCu- -3'
miRNA:   3'- -UG-GAUGc---GGCCGGAgUGUAGGUCGuc -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 + 3331 0.68 0.319046
Target:  5'- uCCUGCGaCGGCCaCACGuucgacgccgaggUCCAGCAc -3'
miRNA:   3'- uGGAUGCgGCCGGaGUGU-------------AGGUCGUc -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 + 23844 0.69 0.289166
Target:  5'- uCCUACGgaGGCCUCACAU--GGCAc -3'
miRNA:   3'- uGGAUGCggCCGGAGUGUAggUCGUc -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 + 30814 0.69 0.274714
Target:  5'- gACCUGgGCCGGCgUCuacgcggcGCAUcagCCGGUAGa -3'
miRNA:   3'- -UGGAUgCGGCCGgAG--------UGUA---GGUCGUC- -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 + 12131 0.69 0.272597
Target:  5'- cGCCUGCGCCGacgcacagacccgcGCCUaccgcgACGUCCuggAGCAGu -3'
miRNA:   3'- -UGGAUGCGGC--------------CGGAg-----UGUAGG---UCGUC- -5'
23169 3' -58.4 NC_005178.1 + 10737 0.66 0.425941
Target:  5'- aGCCc-CGCUGGCCacagCGCGUcCCGGCuGg -3'
miRNA:   3'- -UGGauGCGGCCGGa---GUGUA-GGUCGuC- -5'
23169 3' -58.4 NC_005178.1 + 23018 0.66 0.425941
Target:  5'- aACUUGCGCC-GCUUcCACAguggguuuUUCAGCAGg -3'
miRNA:   3'- -UGGAUGCGGcCGGA-GUGU--------AGGUCGUC- -5'
23169 3' -58.4 NC_005178.1 + 12974 0.66 0.416325
Target:  5'- cGCCcagguCGCCGGUauccggCUUGCugguGUCCAGCAGg -3'
miRNA:   3'- -UGGau---GCGGCCG------GAGUG----UAGGUCGUC- -5'
23169 3' -58.4 NC_005178.1 + 8311 0.66 0.406843
Target:  5'- aGCCgGCGCCGGCCgacucgUAgAUCguGCuGa -3'
miRNA:   3'- -UGGaUGCGGCCGGa-----GUgUAGguCGuC- -5'
23169 3' -58.4 NC_005178.1 + 5353 0.66 0.406843
Target:  5'- gGCCaaACGCuCGGUgUCgGCGUCCAGCu- -3'
miRNA:   3'- -UGGa-UGCG-GCCGgAG-UGUAGGUCGuc -5'
23169 3' -58.4 NC_005178.1 + 2734 0.66 0.397497
Target:  5'- cGCC-ACGCCGGUUgu-CG-CCGGCAGa -3'
miRNA:   3'- -UGGaUGCGGCCGGaguGUaGGUCGUC- -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.