miRNA display CGI


Results 1 - 20 of 35 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
13379 3' -47.2 NC_003409.1 + 33690 1.14 0.00962
Target:  5'- uCCAGCAAUCCAUACGCGAGGAUAAACa -3'
miRNA:   3'- -GGUCGUUAGGUAUGCGCUCCUAUUUG- -5'
13379 3' -47.2 NC_003409.1 + 130092 0.78 0.793111
Target:  5'- aCAGCug-CUAUACGCGGGGGUugauAAACg -3'
miRNA:   3'- gGUCGuuaGGUAUGCGCUCCUA----UUUG- -5'
13379 3' -47.2 NC_003409.1 + 46564 0.75 0.887687
Target:  5'- aCCGGC-AUUCGUACGCGGGGucugguauUGAAUg -3'
miRNA:   3'- -GGUCGuUAGGUAUGCGCUCCu-------AUUUG- -5'
13379 3' -47.2 NC_003409.1 + 18515 0.75 0.894872
Target:  5'- aCAGUaaaguguagGAUCCAUGcCGCGAGGGUAu-- -3'
miRNA:   3'- gGUCG---------UUAGGUAU-GCGCUCCUAUuug -5'
13379 3' -47.2 NC_003409.1 + 132671 0.73 0.947406
Target:  5'- aCAGCGccagCCAgggggACGgGGGGGUGGACg -3'
miRNA:   3'- gGUCGUua--GGUa----UGCgCUCCUAUUUG- -5'
13379 3' -47.2 NC_003409.1 + 40484 0.72 0.967227
Target:  5'- aCCAGCGGacggacgcaaCGUACGUGGGGAUcgGCu -3'
miRNA:   3'- -GGUCGUUag--------GUAUGCGCUCCUAuuUG- -5'
13379 3' -47.2 NC_003409.1 + 24360 0.71 0.978735
Target:  5'- gCCGcGCGcgCaGUGCGCGAGGggGGGCu -3'
miRNA:   3'- -GGU-CGUuaGgUAUGCGCUCCuaUUUG- -5'
13379 3' -47.2 NC_003409.1 + 130884 0.71 0.984405
Target:  5'- cCCAGCGcuggggugguguggGUCCGUACGUguaugguGAGGAUuccGACc -3'
miRNA:   3'- -GGUCGU--------------UAGGUAUGCG-------CUCCUAu--UUG- -5'
13379 3' -47.2 NC_003409.1 + 61867 0.7 0.986767
Target:  5'- -aGGCAGUCCAggucgACaGCGGGGAcggggggUGAGCc -3'
miRNA:   3'- ggUCGUUAGGUa----UG-CGCUCCU-------AUUUG- -5'
13379 3' -47.2 NC_003409.1 + 87989 0.7 0.989991
Target:  5'- aCUAGCcccucCCAUGCGCGAuGGGUcuAGGCu -3'
miRNA:   3'- -GGUCGuua--GGUAUGCGCU-CCUA--UUUG- -5'
13379 3' -47.2 NC_003409.1 + 42195 0.7 0.989991
Target:  5'- aUCAGCAGcUUCAUggccACGUGGGGGUGGcACg -3'
miRNA:   3'- -GGUCGUU-AGGUA----UGCGCUCCUAUU-UG- -5'
13379 3' -47.2 NC_003409.1 + 16247 0.7 0.991292
Target:  5'- aCCGGCuauuGUUCA-GCGUGAGGugcUGAGCa -3'
miRNA:   3'- -GGUCGu---UAGGUaUGCGCUCCu--AUUUG- -5'
13379 3' -47.2 NC_003409.1 + 63356 0.7 0.992455
Target:  5'- uCC-GCGAUCaCAUACGUGAauggaccaagcaGGAUGGAUa -3'
miRNA:   3'- -GGuCGUUAG-GUAUGCGCU------------CCUAUUUG- -5'
13379 3' -47.2 NC_003409.1 + 68383 0.69 0.995222
Target:  5'- gCGGCgAAUCUgaAUAUGaCGAGGAUGAGg -3'
miRNA:   3'- gGUCG-UUAGG--UAUGC-GCUCCUAUUUg -5'
13379 3' -47.2 NC_003409.1 + 131243 0.69 0.995222
Target:  5'- aCCAacGCGG-CCAcacgGCGCGGGGAggugGGGCa -3'
miRNA:   3'- -GGU--CGUUaGGUa---UGCGCUCCUa---UUUG- -5'
13379 3' -47.2 NC_003409.1 + 88688 0.69 0.996558
Target:  5'- gCCGGCAGg-CAgggGCGCGGGGGcu-GCa -3'
miRNA:   3'- -GGUCGUUagGUa--UGCGCUCCUauuUG- -5'
13379 3' -47.2 NC_003409.1 + 117207 0.68 0.996946
Target:  5'- gCAGCAGUCCGccgauaucuuguagUugGgGAGGuuauccAUAAGCa -3'
miRNA:   3'- gGUCGUUAGGU--------------AugCgCUCC------UAUUUG- -5'
13379 3' -47.2 NC_003409.1 + 58553 0.68 0.997101
Target:  5'- uUCGGUGAUCCG-AgGCGAGGAa---- -3'
miRNA:   3'- -GGUCGUUAGGUaUgCGCUCCUauuug -5'
13379 3' -47.2 NC_003409.1 + 31070 0.68 0.99757
Target:  5'- aCCAcGCAuacaCCAUGCGCGGcGGUGGAg -3'
miRNA:   3'- -GGU-CGUua--GGUAUGCGCUcCUAUUUg -5'
13379 3' -47.2 NC_003409.1 + 104315 0.68 0.997974
Target:  5'- cCCAGUcGUCUGUGCG-GAGGAa---- -3'
miRNA:   3'- -GGUCGuUAGGUAUGCgCUCCUauuug -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.