miRNA display CGI


Results 1 - 17 of 17 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
7216 3' -55.7 NC_001900.1 + 25913 0.66 0.677894
Target:  5'- uCAACGACGGuCUGGUCCUCgcccgGGCUg -3'
miRNA:   3'- -GUUGCUGCU-GACCGGGGGagug-UUGA- -5'
7216 3' -55.7 NC_001900.1 + 12611 0.66 0.666881
Target:  5'- gAACGACGGCaagaagUGGacccacaCCCUUCugGACg -3'
miRNA:   3'- gUUGCUGCUG------ACCg------GGGGAGugUUGa -5'
7216 3' -55.7 NC_001900.1 + 27965 0.66 0.652514
Target:  5'- --cCGACGACuugaucccggucagUGGCCCCuCUucgaaCACGACg -3'
miRNA:   3'- guuGCUGCUG--------------ACCGGGG-GA-----GUGUUGa -5'
7216 3' -55.7 NC_001900.1 + 27866 0.66 0.622601
Target:  5'- uGACGACGACUGcaccaaccuuGCuCCUUUCACAGu- -3'
miRNA:   3'- gUUGCUGCUGAC----------CG-GGGGAGUGUUga -5'
7216 3' -55.7 NC_001900.1 + 8423 0.67 0.611527
Target:  5'- -cACGGCaagaaGGCUGGCgUCCUcCGCAACa -3'
miRNA:   3'- guUGCUG-----CUGACCGgGGGA-GUGUUGa -5'
7216 3' -55.7 NC_001900.1 + 48211 0.67 0.600472
Target:  5'- uGAUcGCGACcgUGGCCCCCUC-CGGg- -3'
miRNA:   3'- gUUGcUGCUG--ACCGGGGGAGuGUUga -5'
7216 3' -55.7 NC_001900.1 + 2720 0.67 0.599368
Target:  5'- -cGCGACGACUGGCgcggcaaCCCgUCcgcgugggACGACg -3'
miRNA:   3'- guUGCUGCUGACCG-------GGGgAG--------UGUUGa -5'
7216 3' -55.7 NC_001900.1 + 32018 0.67 0.567505
Target:  5'- aGACGGCGGucUUGGCCgCUUC-CAGCg -3'
miRNA:   3'- gUUGCUGCU--GACCGGgGGAGuGUUGa -5'
7216 3' -55.7 NC_001900.1 + 5971 0.67 0.567505
Target:  5'- aCGGCGACGGCauggGGCCgCC-CGCuACg -3'
miRNA:   3'- -GUUGCUGCUGa---CCGGgGGaGUGuUGa -5'
7216 3' -55.7 NC_001900.1 + 7296 0.68 0.535014
Target:  5'- gUAugGGCGACaagUGGCCgCaCCUCuACAACc -3'
miRNA:   3'- -GUugCUGCUG---ACCGG-G-GGAG-UGUUGa -5'
7216 3' -55.7 NC_001900.1 + 5050 0.68 0.503203
Target:  5'- uGAUGACGAUggacauccccggUGGCCCggugaaggUCUCGCAACg -3'
miRNA:   3'- gUUGCUGCUG------------ACCGGG--------GGAGUGUUGa -5'
7216 3' -55.7 NC_001900.1 + 44681 0.69 0.49278
Target:  5'- aCAGCGugGAacgcGGUCCCCU-GCGGCa -3'
miRNA:   3'- -GUUGCugCUga--CCGGGGGAgUGUUGa -5'
7216 3' -55.7 NC_001900.1 + 43308 0.69 0.462136
Target:  5'- ---aGACGuugcucacGCUGGCUCCCUCACGu-- -3'
miRNA:   3'- guugCUGC--------UGACCGGGGGAGUGUuga -5'
7216 3' -55.7 NC_001900.1 + 157 0.7 0.432524
Target:  5'- -uGCGACGAUgcgaaugccGGCCUCagCUCACAGCUa -3'
miRNA:   3'- guUGCUGCUGa--------CCGGGG--GAGUGUUGA- -5'
7216 3' -55.7 NC_001900.1 + 29246 0.7 0.422901
Target:  5'- cCGACGGCGAC-GaGCCaCCCUCuuGGCUu -3'
miRNA:   3'- -GUUGCUGCUGaC-CGG-GGGAGugUUGA- -5'
7216 3' -55.7 NC_001900.1 + 20147 0.7 0.394823
Target:  5'- gCGACGGCGACUuccgucugcgcGGCCUCgUCGCGGgUg -3'
miRNA:   3'- -GUUGCUGCUGA-----------CCGGGGgAGUGUUgA- -5'
7216 3' -55.7 NC_001900.1 + 16249 1.07 0.001142
Target:  5'- gCAACGACGACUGGCCCCCUCACAACUc -3'
miRNA:   3'- -GUUGCUGCUGACCGGGGGAGUGUUGA- -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.