miRNA display CGI


Results 1 - 20 of 29 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
24428 3' -55.3 NC_005264.1 + 116417 0.66 0.944465
Target:  5'- gCC-CGcGGCAGGucgcuGgGGGcGUCUGGCCGc -3'
miRNA:   3'- -GGaGUuCCGUCU-----UgCCU-CAGACCGGU- -5'
24428 3' -55.3 NC_005264.1 + 84799 0.66 0.944465
Target:  5'- aUUCGAGGCAGGgcauggcgcACGGAGcgaagCUcGCCGu -3'
miRNA:   3'- gGAGUUCCGUCU---------UGCCUCa----GAcCGGU- -5'
24428 3' -55.3 NC_005264.1 + 48720 0.66 0.939878
Target:  5'- aCCUCGAGGUuauucGCGGcAGggccgaCUGGCCc -3'
miRNA:   3'- -GGAGUUCCGucu--UGCC-UCa-----GACCGGu -5'
24428 3' -55.3 NC_005264.1 + 82128 0.66 0.939406
Target:  5'- aCUCGAGGUauaugcacgcgaGGAucGCGGAaacuuuuuugucuGUCcUGGCCAu -3'
miRNA:   3'- gGAGUUCCG------------UCU--UGCCU-------------CAG-ACCGGU- -5'
24428 3' -55.3 NC_005264.1 + 8761 0.66 0.935054
Target:  5'- gCCUCucuGGGgAGAggcgaacgGCGGGcGUC-GGCCAg -3'
miRNA:   3'- -GGAGu--UCCgUCU--------UGCCU-CAGaCCGGU- -5'
24428 3' -55.3 NC_005264.1 + 16641 0.66 0.935054
Target:  5'- aUCUUAGGGUggAGGACGGuAGUaccaugaGGCCAc -3'
miRNA:   3'- -GGAGUUCCG--UCUUGCC-UCAga-----CCGGU- -5'
24428 3' -55.3 NC_005264.1 + 127787 0.66 0.935054
Target:  5'- gCCUCucuGGGgAGAggcgaacgGCGGGcGUC-GGCCAg -3'
miRNA:   3'- -GGAGu--UCCgUCU--------UGCCU-CAGaCCGGU- -5'
24428 3' -55.3 NC_005264.1 + 112338 0.66 0.935054
Target:  5'- --cCAAGGCAGAACuGGccgcGGcCgUGGCCAc -3'
miRNA:   3'- ggaGUUCCGUCUUG-CC----UCaG-ACCGGU- -5'
24428 3' -55.3 NC_005264.1 + 17450 0.66 0.930508
Target:  5'- cCCU--GGGCAGucuguACGGuuucacaguaagcgcGUCUGGCCGu -3'
miRNA:   3'- -GGAguUCCGUCu----UGCCu--------------CAGACCGGU- -5'
24428 3' -55.3 NC_005264.1 + 111390 0.66 0.919147
Target:  5'- aCUUCAGGGUgcucaucucugAGGACGGAGgg-GGCg- -3'
miRNA:   3'- -GGAGUUCCG-----------UCUUGCCUCagaCCGgu -5'
24428 3' -55.3 NC_005264.1 + 31517 0.66 0.919147
Target:  5'- gCUCcAGGCucGGGCGGGGag-GGCCGu -3'
miRNA:   3'- gGAGuUCCGu-CUUGCCUCagaCCGGU- -5'
24428 3' -55.3 NC_005264.1 + 150544 0.66 0.919147
Target:  5'- gCUCcAGGCucGGGCGGGGag-GGCCGu -3'
miRNA:   3'- gGAGuUCCGu-CUUGCCUCagaCCGGU- -5'
24428 3' -55.3 NC_005264.1 + 43993 0.67 0.913366
Target:  5'- aCgCGAGGCGGAcuuggGCaGGGUCgaggugGGCCAu -3'
miRNA:   3'- gGaGUUCCGUCU-----UGcCUCAGa-----CCGGU- -5'
24428 3' -55.3 NC_005264.1 + 27614 0.67 0.912182
Target:  5'- uUUCGAGGUAGAuggcuagGCGGcuGGUCgcgcgaacucguuUGGCCAc -3'
miRNA:   3'- gGAGUUCCGUCU-------UGCC--UCAG-------------ACCGGU- -5'
24428 3' -55.3 NC_005264.1 + 2621 0.67 0.880951
Target:  5'- gCCgagC-AGGCGGGGCGGAGUCUucuGUCu -3'
miRNA:   3'- -GGa--GuUCCGUCUUGCCUCAGAc--CGGu -5'
24428 3' -55.3 NC_005264.1 + 121648 0.67 0.880951
Target:  5'- gCCgagC-AGGCGGGGCGGAGUCUucuGUCu -3'
miRNA:   3'- -GGa--GuUCCGUCUUGCCUCAGAc--CGGu -5'
24428 3' -55.3 NC_005264.1 + 124976 0.67 0.878825
Target:  5'- cCCUCGcgcaGGGCagcggcgcauucgcGGAugGGAGaCgugGGCCAa -3'
miRNA:   3'- -GGAGU----UCCG--------------UCUugCCUCaGa--CCGGU- -5'
24428 3' -55.3 NC_005264.1 + 142163 0.68 0.873788
Target:  5'- gUUCAGGGUuGGACGGAGUCgaguccGaGCCc -3'
miRNA:   3'- gGAGUUCCGuCUUGCCUCAGa-----C-CGGu -5'
24428 3' -55.3 NC_005264.1 + 91879 0.68 0.851021
Target:  5'- -gUCGAGGUA--GCGGGGUggUUGGCCGc -3'
miRNA:   3'- ggAGUUCCGUcuUGCCUCA--GACCGGU- -5'
24428 3' -55.3 NC_005264.1 + 136570 0.68 0.843027
Target:  5'- uCCUCGGuGGCgucgaAGAGCGG-GUCguagagagGGCCGa -3'
miRNA:   3'- -GGAGUU-CCG-----UCUUGCCuCAGa-------CCGGU- -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.