miRNA display CGI


Results 1 - 20 of 38 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
12850 3' -53.7 NC_003387.1 + 1001 0.72 0.463833
Target:  5'- aCCGgGGUCggaugcgcuGCGGCCUUGcgUuugcGGGUCa -3'
miRNA:   3'- -GGCgCUAG---------CGCCGGAACuaA----UCCAGc -5'
12850 3' -53.7 NC_003387.1 + 1592 0.68 0.700228
Target:  5'- -gGCGGUCGacaugucgcaCGGCCUggcGAUUucGGUCGg -3'
miRNA:   3'- ggCGCUAGC----------GCCGGAa--CUAAu-CCAGC- -5'
12850 3' -53.7 NC_003387.1 + 2253 0.66 0.803179
Target:  5'- gCCGaCGAccUCGCgGGCCg-----GGGUCGg -3'
miRNA:   3'- -GGC-GCU--AGCG-CCGGaacuaaUCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 6115 0.66 0.831971
Target:  5'- cCUGCGAcaugCGCGGCagcggCUUGAgggcgccacugugaGGGUCGg -3'
miRNA:   3'- -GGCGCUa---GCGCCG-----GAACUaa------------UCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 6291 0.74 0.352808
Target:  5'- aCGCGAcCGUGGCCgugcUGAccgAGGUCGc -3'
miRNA:   3'- gGCGCUaGCGCCGGa---ACUaa-UCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 6380 0.67 0.753248
Target:  5'- gCCGCGggCGaC-GCCUUGcgUGGG-CGg -3'
miRNA:   3'- -GGCGCuaGC-GcCGGAACuaAUCCaGC- -5'
12850 3' -53.7 NC_003387.1 + 7758 0.69 0.645542
Target:  5'- gCgGCGAUCGCGGCCU-GAgccgcGGcCu -3'
miRNA:   3'- -GgCGCUAGCGCCGGAaCUaau--CCaGc -5'
12850 3' -53.7 NC_003387.1 + 7928 0.67 0.783668
Target:  5'- cCCGUcgagGAUCGCgcgGGCCagcUUGucgAGGUCGg -3'
miRNA:   3'- -GGCG----CUAGCG---CCGG---AACuaaUCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 10631 0.67 0.753248
Target:  5'- aCGCGAcCGCGGCggUGAa-GGGUaCGg -3'
miRNA:   3'- gGCGCUaGCGCCGgaACUaaUCCA-GC- -5'
12850 3' -53.7 NC_003387.1 + 10936 0.68 0.711011
Target:  5'- gCGCcaGGUCGCGGCacgcgcccggCUUGAcgucgAGGUCGc -3'
miRNA:   3'- gGCG--CUAGCGCCG----------GAACUaa---UCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 11828 1.1 0.001383
Target:  5'- gCCGCGAUCGCGGCCUUGAUUAGGUCGc -3'
miRNA:   3'- -GGCGCUAGCGCCGGAACUAAUCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 14677 0.68 0.711011
Target:  5'- aCCGCGGcacgugggagUCGUGGCCgaaguuccUGGUgcgcGGGUCu -3'
miRNA:   3'- -GGCGCU----------AGCGCCGGa-------ACUAa---UCCAGc -5'
12850 3' -53.7 NC_003387.1 + 14704 0.66 0.821971
Target:  5'- gCCGCGAUCcguuGCGGUgcacggCUUGcUgcGGUCGc -3'
miRNA:   3'- -GGCGCUAG----CGCCG------GAACuAauCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 16045 0.72 0.463833
Target:  5'- cCCGCGGUgaaCGCGGCC------AGGUCGg -3'
miRNA:   3'- -GGCGCUA---GCGCCGGaacuaaUCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 17775 0.69 0.667527
Target:  5'- aUCGCGAgcuugCGCagcggcacGGCCggGAUcAGGUCGu -3'
miRNA:   3'- -GGCGCUa----GCG--------CCGGaaCUAaUCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 23358 0.69 0.623507
Target:  5'- cCCGCGAgcaagUGaUGGCCgagcUGAUUcGGGUCGc -3'
miRNA:   3'- -GGCGCUa----GC-GCCGGa---ACUAA-UCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 23428 0.66 0.81267
Target:  5'- cCCGCGGUCGCcggggaacagGGCgUcGAUgcGGGUUGc -3'
miRNA:   3'- -GGCGCUAGCG----------CCGgAaCUAa-UCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 24934 0.7 0.612497
Target:  5'- gCCGCGAcCGacggcgGGCCgccUGAUggccUGGGUCGg -3'
miRNA:   3'- -GGCGCUaGCg-----CCGGa--ACUA----AUCCAGC- -5'
12850 3' -53.7 NC_003387.1 + 27248 0.66 0.803179
Target:  5'- gCGCGGUCgagGCGGCCcgGcAUgccuGGUCGc -3'
miRNA:   3'- gGCGCUAG---CGCCGGaaC-UAau--CCAGC- -5'
12850 3' -53.7 NC_003387.1 + 27632 0.66 0.793508
Target:  5'- cUCGaCGAUCGCGGCCUgcgUGuucacGUCa -3'
miRNA:   3'- -GGC-GCUAGCGCCGGA---ACuaaucCAGc -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.