miRNA display CGI


Results 1 - 20 of 31 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
1379 3' -56.6 NC_001335.1 + 44344 0.67 0.548001
Target:  5'- cUCGGCGGUGAgguUGGugugcucguucacCCGGAUCAggagaUCGUCa -3'
miRNA:   3'- -AGCCGCCGUU---GUC-------------GGCCUAGU-----AGCAG- -5'
1379 3' -56.6 NC_001335.1 + 32833 0.68 0.527803
Target:  5'- gUCGcGCa-CAGCAGCCGaGGcCGUCGUCa -3'
miRNA:   3'- -AGC-CGccGUUGUCGGC-CUaGUAGCAG- -5'
1379 3' -56.6 NC_001335.1 + 38676 0.68 0.496504
Target:  5'- aCGGCGGCGAagcccucGCCGG-UCuccgcugCGUCg -3'
miRNA:   3'- aGCCGCCGUUgu-----CGGCCuAGua-----GCAG- -5'
1379 3' -56.6 NC_001335.1 + 25898 0.69 0.446326
Target:  5'- cUUGGUGGuCGACGGCCuGAcgcUCGUCGcCa -3'
miRNA:   3'- -AGCCGCC-GUUGUCGGcCU---AGUAGCaG- -5'
1379 3' -56.6 NC_001335.1 + 16045 0.69 0.446326
Target:  5'- cUCGGaggucuccuCGGCGGCAGCCGGGggcUCGg- -3'
miRNA:   3'- -AGCC---------GCCGUUGUCGGCCUaguAGCag -5'
1379 3' -56.6 NC_001335.1 + 9870 0.69 0.41761
Target:  5'- gCGGCGGCucaAGCCGcGAUCAcugCGg- -3'
miRNA:   3'- aGCCGCCGuugUCGGC-CUAGUa--GCag -5'
1379 3' -56.6 NC_001335.1 + 7045 0.71 0.3552
Target:  5'- cCGGuCGGCAAgccgcguuCAGCCgcguGGAUCAcCGUCg -3'
miRNA:   3'- aGCC-GCCGUU--------GUCGG----CCUAGUaGCAG- -5'
1379 3' -56.6 NC_001335.1 + 20253 0.75 0.183054
Target:  5'- cUGGcCGGCGACGGCCaGGUCGagggCGUCg -3'
miRNA:   3'- aGCC-GCCGUUGUCGGcCUAGUa---GCAG- -5'
1379 3' -56.6 NC_001335.1 + 5484 0.66 0.592326
Target:  5'- cUCGGCaccgccgccccGGC-ACuGCUGGG-CAUCGUCc -3'
miRNA:   3'- -AGCCG-----------CCGuUGuCGGCCUaGUAGCAG- -5'
1379 3' -56.6 NC_001335.1 + 12970 0.67 0.581441
Target:  5'- cUCaGCGGUuAC-GCCGGAUCGg-GUCa -3'
miRNA:   3'- -AGcCGCCGuUGuCGGCCUAGUagCAG- -5'
1379 3' -56.6 NC_001335.1 + 10214 0.67 0.581441
Target:  5'- gUGGagauGGCAGCAcGCCGacaGAUCAUCGg- -3'
miRNA:   3'- aGCCg---CCGUUGU-CGGC---CUAGUAGCag -5'
1379 3' -56.6 NC_001335.1 + 45606 0.67 0.564117
Target:  5'- cUCGGCGGuCuccuccuaguuggguAGCAGUCGGuuguacUCGUCGUg -3'
miRNA:   3'- -AGCCGCC-G---------------UUGUCGGCCu-----AGUAGCAg -5'
1379 3' -56.6 NC_001335.1 + 4834 0.66 0.614185
Target:  5'- -aGGCGGgcCAGCGGCCuugccGAUCAagccggugaugcUCGUCg -3'
miRNA:   3'- agCCGCC--GUUGUCGGc----CUAGU------------AGCAG- -5'
1379 3' -56.6 NC_001335.1 + 21539 0.67 0.570599
Target:  5'- cCGGCccaGCGAUAGCCGaGGUCGUgGa- -3'
miRNA:   3'- aGCCGc--CGUUGUCGGC-CUAGUAgCag -5'
1379 3' -56.6 NC_001335.1 + 26691 0.67 0.581441
Target:  5'- cUCGGgGGCAuCAGCgCGGuccuccgugcuUCAUCGg- -3'
miRNA:   3'- -AGCCgCCGUuGUCG-GCCu----------AGUAGCag -5'
1379 3' -56.6 NC_001335.1 + 343 0.66 0.636107
Target:  5'- uUCGaucCGGCAACcGCCGGAUC-UCa-- -3'
miRNA:   3'- -AGCc--GCCGUUGuCGGCCUAGuAGcag -5'
1379 3' -56.6 NC_001335.1 + 32701 0.67 0.57493
Target:  5'- cUCGGCGGUguuGACcuuggccagcacgucGGCCGGGUCcgCa-- -3'
miRNA:   3'- -AGCCGCCG---UUG---------------UCGGCCUAGuaGcag -5'
1379 3' -56.6 NC_001335.1 + 20208 0.68 0.527803
Target:  5'- uUCGGCGGUucguGGCuGaCCGGGU--UCGUCc -3'
miRNA:   3'- -AGCCGCCG----UUGuC-GGCCUAguAGCAG- -5'
1379 3' -56.6 NC_001335.1 + 51614 0.7 0.412002
Target:  5'- cCGGCGGCAagauucuccgguuugACAGCCacccGGUUAUCGg- -3'
miRNA:   3'- aGCCGCCGU---------------UGUCGGc---CUAGUAGCag -5'
1379 3' -56.6 NC_001335.1 + 30644 1.1 0.000537
Target:  5'- uUCGGCGGCAACAGCCGGAUCAUCGUCa -3'
miRNA:   3'- -AGCCGCCGUUGUCGGCCUAGUAGCAG- -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.