miRNA display CGI


Results 1 - 20 of 22 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
24906 3' -52.4 NC_005284.1 + 24599 0.66 0.881094
Target:  5'- uCCGCuguuuGCAAAACGuAGGGauGGUUCgCGa -3'
miRNA:   3'- -GGUG-----UGUUUUGUuUCCCgcCCGAG-GC- -5'
24906 3' -52.4 NC_005284.1 + 45049 0.66 0.873263
Target:  5'- aCGCGauucuCGAAGCGu-GGGCGGGCgagCgCGg -3'
miRNA:   3'- gGUGU-----GUUUUGUuuCCCGCCCGa--G-GC- -5'
24906 3' -52.4 NC_005284.1 + 1266 0.66 0.84825
Target:  5'- -gGCGCGAAcauCGAGGGGCcGuGCUUCGa -3'
miRNA:   3'- ggUGUGUUUu--GUUUCCCGcC-CGAGGC- -5'
24906 3' -52.4 NC_005284.1 + 7945 0.66 0.838539
Target:  5'- aUCGC-CGGgguAACGGAGGGCGacgacgaaacggcGGUUCCGa -3'
miRNA:   3'- -GGUGuGUU---UUGUUUCCCGC-------------CCGAGGC- -5'
24906 3' -52.4 NC_005284.1 + 51451 0.67 0.824861
Target:  5'- uCCGCACGAAgcugauggacgucgaGCGAuGGGCGGugaucgcgcGCUuuGg -3'
miRNA:   3'- -GGUGUGUUU---------------UGUUuCCCGCC---------CGAggC- -5'
24906 3' -52.4 NC_005284.1 + 25926 0.67 0.792169
Target:  5'- gCCGCuuAGAugccguuCAAGGuaGGCGGGCUUCGc -3'
miRNA:   3'- -GGUGugUUUu------GUUUC--CCGCCCGAGGC- -5'
24906 3' -52.4 NC_005284.1 + 48504 0.68 0.782155
Target:  5'- ---aGCGAGuCGAAGGGCGGGCg--- -3'
miRNA:   3'- ggugUGUUUuGUUUCCCGCCCGaggc -5'
24906 3' -52.4 NC_005284.1 + 26614 0.68 0.782155
Target:  5'- cCCGCcCAAAACgGGAGcGGCGcGGCgaacugCCGa -3'
miRNA:   3'- -GGUGuGUUUUG-UUUC-CCGC-CCGa-----GGC- -5'
24906 3' -52.4 NC_005284.1 + 28117 0.68 0.770954
Target:  5'- cCCACcCAAAaaugaaaaagcccGCAcGGuGGCGGGCUUCc -3'
miRNA:   3'- -GGUGuGUUU-------------UGUuUC-CCGCCCGAGGc -5'
24906 3' -52.4 NC_005284.1 + 741 0.68 0.761656
Target:  5'- gCCGCAC---ACGAAGGGCgaguGGGCaUUCa -3'
miRNA:   3'- -GGUGUGuuuUGUUUCCCG----CCCG-AGGc -5'
24906 3' -52.4 NC_005284.1 + 49145 0.68 0.761656
Target:  5'- gCGCGCGucguCAAGGcGGaCGGGC-CCGg -3'
miRNA:   3'- gGUGUGUuuu-GUUUC-CC-GCCCGaGGC- -5'
24906 3' -52.4 NC_005284.1 + 46511 0.68 0.751195
Target:  5'- gCCGCACGGGACGGAuGGuGCgaaGGGaggUCCGa -3'
miRNA:   3'- -GGUGUGUUUUGUUU-CC-CG---CCCg--AGGC- -5'
24906 3' -52.4 NC_005284.1 + 34162 0.68 0.751195
Target:  5'- uCgGCACGGAACcGGGGGCGGccgagGCguauuUCCGa -3'
miRNA:   3'- -GgUGUGUUUUGuUUCCCGCC-----CG-----AGGC- -5'
24906 3' -52.4 NC_005284.1 + 34040 0.69 0.697252
Target:  5'- cCCGCAgCAGcgccggccGACGAGcGGGCGGcGCUuCCGc -3'
miRNA:   3'- -GGUGU-GUU--------UUGUUU-CCCGCC-CGA-GGC- -5'
24906 3' -52.4 NC_005284.1 + 27554 0.69 0.696152
Target:  5'- -gGCGCAAGAUAGuccGGGUaaaucucGGGCUCCc -3'
miRNA:   3'- ggUGUGUUUUGUUu--CCCG-------CCCGAGGc -5'
24906 3' -52.4 NC_005284.1 + 35204 0.69 0.693949
Target:  5'- gCGCACAuccGCAGAacacgccgccuaucGGGCGGGgUUCGa -3'
miRNA:   3'- gGUGUGUuu-UGUUU--------------CCCGCCCgAGGC- -5'
24906 3' -52.4 NC_005284.1 + 32966 0.69 0.68622
Target:  5'- gCugACAAcGCuugGAGGGCGGcggucacucGCUCCGc -3'
miRNA:   3'- gGugUGUUuUGu--UUCCCGCC---------CGAGGC- -5'
24906 3' -52.4 NC_005284.1 + 12353 0.7 0.652849
Target:  5'- uUCGCGCGAuuCGccgcGGGUGGGCUCg- -3'
miRNA:   3'- -GGUGUGUUuuGUuu--CCCGCCCGAGgc -5'
24906 3' -52.4 NC_005284.1 + 30907 0.74 0.428005
Target:  5'- cCCAguCGGGauGCAucGGGCGGGCgCCGu -3'
miRNA:   3'- -GGUguGUUU--UGUuuCCCGCCCGaGGC- -5'
24906 3' -52.4 NC_005284.1 + 25057 0.76 0.346142
Target:  5'- gCCugGCAAGu--AAGGGUGcGGCUCCa -3'
miRNA:   3'- -GGugUGUUUuguUUCCCGC-CCGAGGc -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.