miRNA display CGI


Results 1 - 20 of 27 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
22570 3' -55.6 NC_005091.1 + 40840 0.66 0.771577
Target:  5'- gCCGAgcaGGUCguAAUCCCccgcucggauGGCGUUcgugaccgugcaGAGCg -3'
miRNA:   3'- -GGCU---CCAGguUUAGGG----------CCGCAG------------CUCG- -5'
22570 3' -55.6 NC_005091.1 + 27225 0.66 0.771577
Target:  5'- uCCGGGuGUCCuucggccaucaAGAggCUGGCGUCGcGCc -3'
miRNA:   3'- -GGCUC-CAGG-----------UUUagGGCCGCAGCuCG- -5'
22570 3' -55.6 NC_005091.1 + 7391 0.66 0.751612
Target:  5'- gCGAcuGGUCUGGugcgCCuCGGCuugGUCGAGCu -3'
miRNA:   3'- gGCU--CCAGGUUua--GG-GCCG---CAGCUCG- -5'
22570 3' -55.6 NC_005091.1 + 48120 0.66 0.751612
Target:  5'- aUCGaAGGUCCGAAuguUUuuGGCGUCa--- -3'
miRNA:   3'- -GGC-UCCAGGUUU---AGggCCGCAGcucg -5'
22570 3' -55.6 NC_005091.1 + 17013 0.66 0.751612
Target:  5'- aCaAGGUaaAAAUCUCGGCGUCuGGUg -3'
miRNA:   3'- gGcUCCAggUUUAGGGCCGCAGcUCG- -5'
22570 3' -55.6 NC_005091.1 + 40558 0.67 0.710376
Target:  5'- gCCGA-GUCgGuAUCCC-GCGcCGAGCa -3'
miRNA:   3'- -GGCUcCAGgUuUAGGGcCGCaGCUCG- -5'
22570 3' -55.6 NC_005091.1 + 1506 0.67 0.710376
Target:  5'- uUCGGGGuaUCCgAAAUCCuUGGCGcUCG-GCa -3'
miRNA:   3'- -GGCUCC--AGG-UUUAGG-GCCGC-AGCuCG- -5'
22570 3' -55.6 NC_005091.1 + 12998 0.67 0.710376
Target:  5'- uUCGGGG-CCGuuugucAUUCUGGCGcUCGGGUa -3'
miRNA:   3'- -GGCUCCaGGUu-----UAGGGCCGC-AGCUCG- -5'
22570 3' -55.6 NC_005091.1 + 57254 0.67 0.699858
Target:  5'- gCCGAucaUCCcgcaaCCCGGCGUCG-GCa -3'
miRNA:   3'- -GGCUcc-AGGuuua-GGGCCGCAGCuCG- -5'
22570 3' -55.6 NC_005091.1 + 4187 0.67 0.697746
Target:  5'- gCCGAGcggauGUCCAAGguccugucguugCCCGGCGgCGcGCc -3'
miRNA:   3'- -GGCUC-----CAGGUUUa-----------GGGCCGCaGCuCG- -5'
22570 3' -55.6 NC_005091.1 + 6615 0.67 0.688215
Target:  5'- gCGGcGUCCGGGcUgCCGGCGUucaugccCGAGCg -3'
miRNA:   3'- gGCUcCAGGUUU-AgGGCCGCA-------GCUCG- -5'
22570 3' -55.6 NC_005091.1 + 14626 0.67 0.682902
Target:  5'- gUCGGcGUCCAGuugcaagcagccgucGcCCCGGCaUCGAGCg -3'
miRNA:   3'- -GGCUcCAGGUU---------------UaGGGCCGcAGCUCG- -5'
22570 3' -55.6 NC_005091.1 + 48603 0.68 0.657259
Target:  5'- gUCGGGGUCCca--UCCGGCGagGcGCg -3'
miRNA:   3'- -GGCUCCAGGuuuaGGGCCGCagCuCG- -5'
22570 3' -55.6 NC_005091.1 + 20224 0.68 0.646529
Target:  5'- aCGAuGUCCAguGAagCCGcGCaGUCGAGCg -3'
miRNA:   3'- gGCUcCAGGU--UUagGGC-CG-CAGCUCG- -5'
22570 3' -55.6 NC_005091.1 + 51789 0.68 0.646529
Target:  5'- uCCGcGaUCU---UCCCGGCGUcCGGGCg -3'
miRNA:   3'- -GGCuCcAGGuuuAGGGCCGCA-GCUCG- -5'
22570 3' -55.6 NC_005091.1 + 701 0.68 0.635787
Target:  5'- uCCGcaguGGUCgAuGUCCgGGCugcugcgugagGUCGAGCg -3'
miRNA:   3'- -GGCu---CCAGgUuUAGGgCCG-----------CAGCUCG- -5'
22570 3' -55.6 NC_005091.1 + 25200 0.69 0.550462
Target:  5'- aCCGGGGUCgAugcagCCgGcGCGUCGAugGCg -3'
miRNA:   3'- -GGCUCCAGgUuua--GGgC-CGCAGCU--CG- -5'
22570 3' -55.6 NC_005091.1 + 26425 0.7 0.509026
Target:  5'- gCCGGGGcugCCAucguagcggCCgGGCG-CGAGCa -3'
miRNA:   3'- -GGCUCCa--GGUuua------GGgCCGCaGCUCG- -5'
22570 3' -55.6 NC_005091.1 + 5717 0.71 0.481811
Target:  5'- gCUGGGGUCCGuauugucGAcauugcgccggaucaUCCCGGCGaucuccuuagCGAGCg -3'
miRNA:   3'- -GGCUCCAGGU-------UU---------------AGGGCCGCa---------GCUCG- -5'
22570 3' -55.6 NC_005091.1 + 31761 0.71 0.44954
Target:  5'- uCCGAGGcggCCGGGuUCCaCGGCa-CGAGCa -3'
miRNA:   3'- -GGCUCCa--GGUUU-AGG-GCCGcaGCUCG- -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.