miRNA display CGI


Results 1 - 20 of 90 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
21376 3' -59 NC_004812.1 + 406 0.67 0.712473
Target:  5'- cGUCCcUCUC-CCCAGcgGCCCCcucccccccuccccuUCCUCg -3'
miRNA:   3'- -CGGGaAGAGaGGGUC--UGGGG---------------AGGAGa -5'
21376 3' -59 NC_004812.1 + 499 0.67 0.756532
Target:  5'- cCCCUUCUCccggccCCCGGuCCCCgcugUCUCc -3'
miRNA:   3'- cGGGAAGAGa-----GGGUCuGGGGa---GGAGa -5'
21376 3' -59 NC_004812.1 + 530 0.66 0.784119
Target:  5'- gGCCCgcgCg--CCCGGGCCCUcccgCCUCc -3'
miRNA:   3'- -CGGGaa-GagaGGGUCUGGGGa---GGAGa -5'
21376 3' -59 NC_004812.1 + 680 0.67 0.718316
Target:  5'- cCCCggCgCUCCCGcGGCCcggCCUCCUCg -3'
miRNA:   3'- cGGGaaGaGAGGGU-CUGG---GGAGGAGa -5'
21376 3' -59 NC_004812.1 + 1054 0.67 0.747114
Target:  5'- cGCCCcUCccccCUCCCccGCCCCUCC-Cg -3'
miRNA:   3'- -CGGGaAGa---GAGGGucUGGGGAGGaGa -5'
21376 3' -59 NC_004812.1 + 1822 0.69 0.608992
Target:  5'- cGCCUcgcCUCUCCUcc-CCCCUCCUCc -3'
miRNA:   3'- -CGGGaa-GAGAGGGucuGGGGAGGAGa -5'
21376 3' -59 NC_004812.1 + 3195 0.69 0.599003
Target:  5'- cGCCggCUUCUCUCUCucuccGCCCCUCCg-- -3'
miRNA:   3'- -CGG--GAAGAGAGGGuc---UGGGGAGGaga -5'
21376 3' -59 NC_004812.1 + 3829 0.71 0.510896
Target:  5'- gGCCCcg--C-CCCAGGCCCCgccCCUCUg -3'
miRNA:   3'- -CGGGaagaGaGGGUCUGGGGa--GGAGA- -5'
21376 3' -59 NC_004812.1 + 4043 0.67 0.718316
Target:  5'- cGCCCgccgCUCcgccuccgCCgCAGGCCgCUCCUCc -3'
miRNA:   3'- -CGGGaa--GAGa-------GG-GUCUGGgGAGGAGa -5'
21376 3' -59 NC_004812.1 + 5731 0.67 0.717344
Target:  5'- cCCCUgugucUCUCUCCgCAcacacgcgccuccGGCCCCucUCCUCUc -3'
miRNA:   3'- cGGGA-----AGAGAGG-GU-------------CUGGGG--AGGAGA- -5'
21376 3' -59 NC_004812.1 + 6163 0.72 0.428638
Target:  5'- cGCCC-UCUCUCCCc-GCCCCUgucgUCUCUc -3'
miRNA:   3'- -CGGGaAGAGAGGGucUGGGGA----GGAGA- -5'
21376 3' -59 NC_004812.1 + 7090 0.69 0.636025
Target:  5'- uCCCUuuuuuuccucucugUCUCUCCCccucGGACCCCcaccgccCCUCUc -3'
miRNA:   3'- cGGGA--------------AGAGAGGG----UCUGGGGa------GGAGA- -5'
21376 3' -59 NC_004812.1 + 7309 0.72 0.455223
Target:  5'- cGCCCgUCg--CCCGGcCCUCUCCUCg -3'
miRNA:   3'- -CGGGaAGagaGGGUCuGGGGAGGAGa -5'
21376 3' -59 NC_004812.1 + 8103 0.66 0.801871
Target:  5'- cGCCCcccCUCccccggCCCGGaACCCCgaaaagCCUCg -3'
miRNA:   3'- -CGGGaa-GAGa-----GGGUC-UGGGGa-----GGAGa -5'
21376 3' -59 NC_004812.1 + 13089 0.68 0.659041
Target:  5'- cGCCCccaugcgCUCguacgCCCGGGCCCg-CCUCg -3'
miRNA:   3'- -CGGGaa-----GAGa----GGGUCUGGGgaGGAGa -5'
21376 3' -59 NC_004812.1 + 16917 0.66 0.801871
Target:  5'- aGCUCgccgUCU-CCGGcCCCCUCCUCg -3'
miRNA:   3'- -CGGGaag-AGAgGGUCuGGGGAGGAGa -5'
21376 3' -59 NC_004812.1 + 16957 0.73 0.394661
Target:  5'- cGCCaucCUCUCCCcuGCCCCUCuCUCg -3'
miRNA:   3'- -CGGgaaGAGAGGGucUGGGGAG-GAGa -5'
21376 3' -59 NC_004812.1 + 25003 0.72 0.437398
Target:  5'- uCCUUUCUCUCCCcucCCCCUCCcCUc -3'
miRNA:   3'- cGGGAAGAGAGGGucuGGGGAGGaGA- -5'
21376 3' -59 NC_004812.1 + 28801 0.69 0.63903
Target:  5'- cGCCCUgCUCgagCCGGACCCCgacgCCg-- -3'
miRNA:   3'- -CGGGAaGAGag-GGUCUGGGGa---GGaga -5'
21376 3' -59 NC_004812.1 + 29627 0.73 0.419982
Target:  5'- -aCCUUCUCUCCCuccucCCCCUCCcCa -3'
miRNA:   3'- cgGGAAGAGAGGGucu--GGGGAGGaGa -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.