miRNA display CGI


Results 1 - 20 of 50 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
17126 3' -55.2 NC_004333.2 + 43066 0.66 0.716412
Target:  5'- -aUAGCCaucgGUCGAG-AGCGcCGCCc -3'
miRNA:   3'- acAUCGGgca-CAGCUCgUUGCaGCGG- -5'
17126 3' -55.2 NC_004333.2 + 9762 0.66 0.716412
Target:  5'- ---cGCCCGUcGUcaaCGAGCgccacAugGUUGCCa -3'
miRNA:   3'- acauCGGGCA-CA---GCUCG-----UugCAGCGG- -5'
17126 3' -55.2 NC_004333.2 + 9559 0.66 0.716412
Target:  5'- cGgcGCCgauCGUGgCGAGUu-CGUUGCCg -3'
miRNA:   3'- aCauCGG---GCACaGCUCGuuGCAGCGG- -5'
17126 3' -55.2 NC_004333.2 + 20963 0.66 0.716412
Target:  5'- aGUAGCaCgCGcUGcgcCGGGCu-CGUCGCCg -3'
miRNA:   3'- aCAUCG-G-GC-ACa--GCUCGuuGCAGCGG- -5'
17126 3' -55.2 NC_004333.2 + 2576 0.66 0.716412
Target:  5'- aUGUAcgucgcGCCCGaucUCGAgGCAGCGUCGaUCg -3'
miRNA:   3'- -ACAU------CGGGCac-AGCU-CGUUGCAGC-GG- -5'
17126 3' -55.2 NC_004333.2 + 38241 0.66 0.694789
Target:  5'- --cGGCCauUG-CGAGCGGCGU-GCCa -3'
miRNA:   3'- acaUCGGgcACaGCUCGUUGCAgCGG- -5'
17126 3' -55.2 NC_004333.2 + 13956 0.66 0.694789
Target:  5'- --cAGCCCGUGcCGGcCGACuUCGCg -3'
miRNA:   3'- acaUCGGGCACaGCUcGUUGcAGCGg -5'
17126 3' -55.2 NC_004333.2 + 11547 0.66 0.694789
Target:  5'- aUGUcgaAGCCCGcGUUGcGCAgacGCGaUUGCCa -3'
miRNA:   3'- -ACA---UCGGGCaCAGCuCGU---UGC-AGCGG- -5'
17126 3' -55.2 NC_004333.2 + 41974 0.66 0.672921
Target:  5'- gUGUcGCCaGUG-CGGGCGAcCG-CGCCa -3'
miRNA:   3'- -ACAuCGGgCACaGCUCGUU-GCaGCGG- -5'
17126 3' -55.2 NC_004333.2 + 36204 0.66 0.672921
Target:  5'- --aAGCCCGagcacuugGUCGuAGCGaaugccuuGCGUCGCg -3'
miRNA:   3'- acaUCGGGCa-------CAGC-UCGU--------UGCAGCGg -5'
17126 3' -55.2 NC_004333.2 + 680 0.66 0.672921
Target:  5'- aGU-GCCCGUGcucggUGAGCGcgauCGUgcCGCCg -3'
miRNA:   3'- aCAuCGGGCACa----GCUCGUu---GCA--GCGG- -5'
17126 3' -55.2 NC_004333.2 + 27698 0.67 0.65972
Target:  5'- cUGU-GCCCGUGaaugCuGGCAACGgcaugcagaaggCGCCg -3'
miRNA:   3'- -ACAuCGGGCACa---GcUCGUUGCa-----------GCGG- -5'
17126 3' -55.2 NC_004333.2 + 3295 0.67 0.650898
Target:  5'- ---uGCCCGgcgucaucgGggCGGGCGGCG-CGCCg -3'
miRNA:   3'- acauCGGGCa--------Ca-GCUCGUUGCaGCGG- -5'
17126 3' -55.2 NC_004333.2 + 29157 0.67 0.650898
Target:  5'- cGUAGCCgaCGUaguaGUCGAGUGACugGUCggGCCg -3'
miRNA:   3'- aCAUCGG--GCA----CAGCUCGUUG--CAG--CGG- -5'
17126 3' -55.2 NC_004333.2 + 21009 0.67 0.639855
Target:  5'- cGUGGCagCCGUcaCGGGCGACGaagUgGCCg -3'
miRNA:   3'- aCAUCG--GGCAcaGCUCGUUGC---AgCGG- -5'
17126 3' -55.2 NC_004333.2 + 11905 0.67 0.628805
Target:  5'- cGUcgcGGCCCGgcaugCGcAGCGGCGcgcgCGCCa -3'
miRNA:   3'- aCA---UCGGGCaca--GC-UCGUUGCa---GCGG- -5'
17126 3' -55.2 NC_004333.2 + 8708 0.67 0.628805
Target:  5'- --gGGCgCCGcGcCGAGCucGACGUCGCg -3'
miRNA:   3'- acaUCG-GGCaCaGCUCG--UUGCAGCGg -5'
17126 3' -55.2 NC_004333.2 + 41753 0.67 0.628805
Target:  5'- ---cGCCCGcGUCGAGC-ACGaggauauucuccUUGCCg -3'
miRNA:   3'- acauCGGGCaCAGCUCGuUGC------------AGCGG- -5'
17126 3' -55.2 NC_004333.2 + 4794 0.67 0.628805
Target:  5'- gGUgAGCCCGcGUCGcGUGACGcucauaCGCCg -3'
miRNA:   3'- aCA-UCGGGCaCAGCuCGUUGCa-----GCGG- -5'
17126 3' -55.2 NC_004333.2 + 41819 0.67 0.617758
Target:  5'- -aUAGCCCGg--CGcGCGA-GUCGCCc -3'
miRNA:   3'- acAUCGGGCacaGCuCGUUgCAGCGG- -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.