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
30551 5' -55.7 NC_006548.1 + 22463 0.66 0.632975
Target:  5'- aGCCGCGAcggcguucucgaagAAGAAGCCgagguCCGGuGC-GGu -3'
miRNA:   3'- -CGGCGCU--------------UUCUUUGG-----GGCCuCGaCCc -5'
30551 5' -55.7 NC_006548.1 + 6870 0.66 0.624053
Target:  5'- gGCUGCGcaguucgguGAccGGCUCCGGcgccaauAGCUGGGa -3'
miRNA:   3'- -CGGCGCuuu------CU--UUGGGGCC-------UCGACCC- -5'
30551 5' -55.7 NC_006548.1 + 23105 0.66 0.620708
Target:  5'- gGCCGUGuacaucacGCUgCCGGAGCUGGc -3'
miRNA:   3'- -CGGCGCuuucuu--UGG-GGCCUCGACCc -5'
30551 5' -55.7 NC_006548.1 + 30229 0.66 0.614022
Target:  5'- aCCGCGAAcccAGA---CCUGGucgcGGCUGGGc -3'
miRNA:   3'- cGGCGCUU---UCUuugGGGCC----UCGACCC- -5'
30551 5' -55.7 NC_006548.1 + 4649 0.66 0.614022
Target:  5'- uGCCGUGGAA-AAGCaCCUGGAGUUccgcuucggccGGGc -3'
miRNA:   3'- -CGGCGCUUUcUUUG-GGGCCUCGA-----------CCC- -5'
30551 5' -55.7 NC_006548.1 + 829 0.66 0.602891
Target:  5'- gGCCGaGAugAGGcuGCCCUGGAGCUa-- -3'
miRNA:   3'- -CGGCgCU--UUCuuUGGGGCCUCGAccc -5'
30551 5' -55.7 NC_006548.1 + 4348 0.67 0.56969
Target:  5'- aCCGUGcu---GACgCCGGAGCUGGc -3'
miRNA:   3'- cGGCGCuuucuUUGgGGCCUCGACCc -5'
30551 5' -55.7 NC_006548.1 + 16480 0.67 0.541287
Target:  5'- gGCUGCGgcAG-AGCaCCUGGAGCagcagcugcagcgcgUGGGc -3'
miRNA:   3'- -CGGCGCuuUCuUUG-GGGCCUCG---------------ACCC- -5'
30551 5' -55.7 NC_006548.1 + 2315 0.67 0.536958
Target:  5'- gGCUGCGc-GGcgGCgCCGGAGCUGa- -3'
miRNA:   3'- -CGGCGCuuUCuuUGgGGCCUCGACcc -5'
30551 5' -55.7 NC_006548.1 + 12168 0.67 0.536958
Target:  5'- gGCCGaCGAGaAGAAACCgCCGGccagcAGCaGGa -3'
miRNA:   3'- -CGGC-GCUU-UCUUUGG-GGCC-----UCGaCCc -5'
30551 5' -55.7 NC_006548.1 + 14025 0.68 0.504901
Target:  5'- aCCGCuGGAGAu-CCgCCGcGAGCUGGa -3'
miRNA:   3'- cGGCGcUUUCUuuGG-GGC-CUCGACCc -5'
30551 5' -55.7 NC_006548.1 + 20804 0.69 0.453441
Target:  5'- uGCCGCGccAGAAgGCUCCGGugaucgagcuGCUGGu -3'
miRNA:   3'- -CGGCGCuuUCUU-UGGGGCCu---------CGACCc -5'
30551 5' -55.7 NC_006548.1 + 3980 0.69 0.453441
Target:  5'- uUCGCGAAGGA--CCa-GGAGCUGGu -3'
miRNA:   3'- cGGCGCUUUCUuuGGggCCUCGACCc -5'
30551 5' -55.7 NC_006548.1 + 36589 0.69 0.433665
Target:  5'- cGCCGCGGccGgcACCgCGGuGCUcgcgcGGGg -3'
miRNA:   3'- -CGGCGCUuuCuuUGGgGCCuCGA-----CCC- -5'
30551 5' -55.7 NC_006548.1 + 4136 0.7 0.39567
Target:  5'- uGCCGCGGAGGAcACCCUcGAaccGCUGa- -3'
miRNA:   3'- -CGGCGCUUUCUuUGGGGcCU---CGACcc -5'
30551 5' -55.7 NC_006548.1 + 23404 0.72 0.273562
Target:  5'- gGCCaGUGgcAGAcuguAGCCCCGGcGCUGGa -3'
miRNA:   3'- -CGG-CGCuuUCU----UUGGGGCCuCGACCc -5'
30551 5' -55.7 NC_006548.1 + 27742 1.11 0.000444
Target:  5'- gGCCGCGAAAGAAACCCCGGAGCUGGGc -3'
miRNA:   3'- -CGGCGCUUUCUUUGGGGCCUCGACCC- -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.