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
12003 5' -55.8 NC_003278.1 + 6476 0.66 0.530708
Target:  5'- ---cGG-CGugCUGCAGGcCGGCAAGg -3'
miRNA:   3'- acuuCCgGUugGGCGUCCaGUCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 22904 0.66 0.519686
Target:  5'- cGuuGGCCugguccAgCUGCAGGaUCGGCAGGc -3'
miRNA:   3'- aCuuCCGGu-----UgGGCGUCC-AGUCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 14093 0.66 0.516396
Target:  5'- gGcGGGCCAggauguccggcgugAUgCGCAGGUCcaGGCGGGu -3'
miRNA:   3'- aCuUCCGGU--------------UGgGCGUCCAG--UCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 10155 0.66 0.497921
Target:  5'- ---uGGCCAACCUcaccaagguGCAGGaCGGCAu- -3'
miRNA:   3'- acuuCCGGUUGGG---------CGUCCaGUCGUuc -5'
12003 5' -55.8 NC_003278.1 + 7886 0.67 0.487192
Target:  5'- gGAGGGUgGGgCCGU-GGUCGGCcAGg -3'
miRNA:   3'- aCUUCCGgUUgGGCGuCCAGUCGuUC- -5'
12003 5' -55.8 NC_003278.1 + 6986 0.67 0.476574
Target:  5'- -uGGGGCCGAUCUGCcAGGUCcucuccuuccugAGCAGu -3'
miRNA:   3'- acUUCCGGUUGGGCG-UCCAG------------UCGUUc -5'
12003 5' -55.8 NC_003278.1 + 13072 0.67 0.476574
Target:  5'- gGAAGGCCucAGCaCCGCGGGaCcGCGu- -3'
miRNA:   3'- aCUUCCGG--UUG-GGCGUCCaGuCGUuc -5'
12003 5' -55.8 NC_003278.1 + 1871 0.67 0.476574
Target:  5'- ---uGGCCGACUCGU---UCAGCAGGg -3'
miRNA:   3'- acuuCCGGUUGGGCGuccAGUCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 31815 0.67 0.466072
Target:  5'- cGGA-GCCu-CCCGCcGGUUGGCGGGa -3'
miRNA:   3'- aCUUcCGGuuGGGCGuCCAGUCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 27103 0.67 0.435311
Target:  5'- gGAGGaGCgGAUCCGCAuccggcuguGG-CAGCAGGg -3'
miRNA:   3'- aCUUC-CGgUUGGGCGU---------CCaGUCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 20578 0.68 0.425321
Target:  5'- cGAGGGCgAGgCCGCgaGGGUCGccGCGAc -3'
miRNA:   3'- aCUUCCGgUUgGGCG--UCCAGU--CGUUc -5'
12003 5' -55.8 NC_003278.1 + 1646 0.68 0.425321
Target:  5'- ----cGCCGGCCUGCGGGUCuauccGCAGc -3'
miRNA:   3'- acuucCGGUUGGGCGUCCAGu----CGUUc -5'
12003 5' -55.8 NC_003278.1 + 34195 0.68 0.415468
Target:  5'- gGAGcGGCC--CCCGC--GUCAGCGAGg -3'
miRNA:   3'- aCUU-CCGGuuGGGCGucCAGUCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 11921 0.68 0.405757
Target:  5'- -cAAGG-CAGCCaGCcGGUCAGCAGGu -3'
miRNA:   3'- acUUCCgGUUGGgCGuCCAGUCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 3012 0.68 0.405757
Target:  5'- aGAcGGgCGACaCCGCGGGUCuGguGGu -3'
miRNA:   3'- aCUuCCgGUUG-GGCGUCCAGuCguUC- -5'
12003 5' -55.8 NC_003278.1 + 21146 0.68 0.39619
Target:  5'- aGAuccAGGCgGGCCUgaacgGCGGGaUCGGCGGGa -3'
miRNA:   3'- aCU---UCCGgUUGGG-----CGUCC-AGUCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 2939 0.68 0.386769
Target:  5'- gGAGGcGCCAccaccaccagACCCGCGGuGUCgcccgucucGGCGGGg -3'
miRNA:   3'- aCUUC-CGGU----------UGGGCGUC-CAG---------UCGUUC- -5'
12003 5' -55.8 NC_003278.1 + 23085 0.69 0.359407
Target:  5'- ---cGGUCGGCCUGCAGGU-AGCGGu -3'
miRNA:   3'- acuuCCGGUUGGGCGUCCAgUCGUUc -5'
12003 5' -55.8 NC_003278.1 + 12538 0.69 0.350592
Target:  5'- gUGgcGGCauaGACCUGCAGG-CGGguGGu -3'
miRNA:   3'- -ACuuCCGg--UUGGGCGUCCaGUCguUC- -5'
12003 5' -55.8 NC_003278.1 + 31655 0.69 0.333427
Target:  5'- --cGGGCgcgUCCGCGGGUCGGCAAc -3'
miRNA:   3'- acuUCCGguuGGGCGUCCAGUCGUUc -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.