miRNA display CGI


Results 1 - 20 of 20 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
20605 5' -61.3 NC_004688.1 + 94 0.66 0.562752
Target:  5'- ---cAGCUCgGCCGGCGGCCCUuuGAccuGCGg -3'
miRNA:   3'- aacuUCGGG-CGGUCGCCGGGG--CU---UGU- -5'
20605 5' -61.3 NC_004688.1 + 15292 0.66 0.54668
Target:  5'- --cAAGCCCgGCCcagaggcuucucgggAGCGGCCuCCGAAg- -3'
miRNA:   3'- aacUUCGGG-CGG---------------UCGCCGG-GGCUUgu -5'
20605 5' -61.3 NC_004688.1 + 99034 0.66 0.532739
Target:  5'- -gGggGCCCGCCAuucaGGCUgaCCGAGg- -3'
miRNA:   3'- aaCuuCGGGCGGUcg--CCGG--GGCUUgu -5'
20605 5' -61.3 NC_004688.1 + 35240 0.66 0.522859
Target:  5'- -aGggGCUcuCGUCGGCaGCgCCGAACGa -3'
miRNA:   3'- aaCuuCGG--GCGGUCGcCGgGGCUUGU- -5'
20605 5' -61.3 NC_004688.1 + 56565 0.67 0.503319
Target:  5'- gUGAuguGCCCG-CGGCGGCCgggGAACAc -3'
miRNA:   3'- aACUu--CGGGCgGUCGCCGGgg-CUUGU- -5'
20605 5' -61.3 NC_004688.1 + 31831 0.67 0.487918
Target:  5'- --cGGGUCCGaugcaauguuguugaUgGGCGGCCCCGGGCGg -3'
miRNA:   3'- aacUUCGGGC---------------GgUCGCCGGGGCUUGU- -5'
20605 5' -61.3 NC_004688.1 + 95735 0.67 0.474627
Target:  5'- -cGggGCCUGCCucaaGGCCCaaGGGCAu -3'
miRNA:   3'- aaCuuCGGGCGGucg-CCGGGg-CUUGU- -5'
20605 5' -61.3 NC_004688.1 + 83569 0.67 0.474627
Target:  5'- cUGAAGCuuGUCGGUcgGGgCCCGGugAa -3'
miRNA:   3'- aACUUCGggCGGUCG--CCgGGGCUugU- -5'
20605 5' -61.3 NC_004688.1 + 31020 0.67 0.474627
Target:  5'- -gGgcGCCCGUCGGCcgagugGGCCCaaggugCGAGCAc -3'
miRNA:   3'- aaCuuCGGGCGGUCG------CCGGG------GCUUGU- -5'
20605 5' -61.3 NC_004688.1 + 35627 0.67 0.473684
Target:  5'- -aGAGGCCCucggcgaGCaCGGUGGCaCCCGcGCGg -3'
miRNA:   3'- aaCUUCGGG-------CG-GUCGCCG-GGGCuUGU- -5'
20605 5' -61.3 NC_004688.1 + 84836 0.67 0.465245
Target:  5'- -gGAGGCCCGUgGGCauaccGGUgCUGAGCGg -3'
miRNA:   3'- aaCUUCGGGCGgUCG-----CCGgGGCUUGU- -5'
20605 5' -61.3 NC_004688.1 + 87914 0.68 0.446776
Target:  5'- -cGAuGGCCgCaCCAGCGcGCCCCGAGgGg -3'
miRNA:   3'- aaCU-UCGG-GcGGUCGC-CGGGGCUUgU- -5'
20605 5' -61.3 NC_004688.1 + 71928 0.68 0.446776
Target:  5'- gUGAcGCUCGucaggcuuCCAGCGcCCCCGGACAc -3'
miRNA:   3'- aACUuCGGGC--------GGUCGCcGGGGCUUGU- -5'
20605 5' -61.3 NC_004688.1 + 75241 0.68 0.428723
Target:  5'- ---cAGCCCggGCCGGUGGCCUucaucuggCGAGCAa -3'
miRNA:   3'- aacuUCGGG--CGGUCGCCGGG--------GCUUGU- -5'
20605 5' -61.3 NC_004688.1 + 86876 0.71 0.267822
Target:  5'- cUGAcGgCCGCCAGC-GCCCCGGAg- -3'
miRNA:   3'- aACUuCgGGCGGUCGcCGGGGCUUgu -5'
20605 5' -61.3 NC_004688.1 + 57714 0.72 0.261519
Target:  5'- -aGAAGCCCGCgAGUGGCUCaagaAGCAa -3'
miRNA:   3'- aaCUUCGGGCGgUCGCCGGGgc--UUGU- -5'
20605 5' -61.3 NC_004688.1 + 92281 0.72 0.253505
Target:  5'- gUGAcGCCgucguauaucaauuCGCCAGUGGCCCCGGcCGc -3'
miRNA:   3'- aACUuCGG--------------GCGGUCGCCGGGGCUuGU- -5'
20605 5' -61.3 NC_004688.1 + 89228 0.74 0.195025
Target:  5'- gUUGGAgcGCCCGCCGcCGGCCuuGAACc -3'
miRNA:   3'- -AACUU--CGGGCGGUcGCCGGggCUUGu -5'
20605 5' -61.3 NC_004688.1 + 14534 0.74 0.190209
Target:  5'- -aGggGCgCGCCAaccuccGCGGCCuCCGAAUAg -3'
miRNA:   3'- aaCuuCGgGCGGU------CGCCGG-GGCUUGU- -5'
20605 5' -61.3 NC_004688.1 + 66091 0.74 0.180888
Target:  5'- -aGguGCCCGCCgcgguGGUGGCCgCGAACAg -3'
miRNA:   3'- aaCuuCGGGCGG-----UCGCCGGgGCUUGU- -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.