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
19004 5' -58 NC_004684.1 + 20976 0.71 0.339432
Target:  5'- uCGGAg--CGGCGGcGCAGGUCGGCc-- -3'
miRNA:   3'- -GCCUaugGCUGUC-CGUCCAGCCGcuu -5'
19004 5' -58 NC_004684.1 + 31105 0.66 0.640032
Target:  5'- aGGAcGCCGcGCAGGCgcuggAGGaccUUGGCGAc -3'
miRNA:   3'- gCCUaUGGC-UGUCCG-----UCC---AGCCGCUu -5'
19004 5' -58 NC_004684.1 + 19027 0.66 0.62933
Target:  5'- cCGGGUuggcACCGGCggccGGGCAGGUCaugaaguGCGGc -3'
miRNA:   3'- -GCCUA----UGGCUG----UCCGUCCAGc------CGCUu -5'
19004 5' -58 NC_004684.1 + 43454 0.66 0.62933
Target:  5'- gCGGcggGCgCGGCA-GCAGGUgCGGCGGc -3'
miRNA:   3'- -GCCua-UG-GCUGUcCGUCCA-GCCGCUu -5'
19004 5' -58 NC_004684.1 + 65476 0.66 0.62933
Target:  5'- aGGc--CCGGCAGGcCGGGUcCGGCa-- -3'
miRNA:   3'- gCCuauGGCUGUCC-GUCCA-GCCGcuu -5'
19004 5' -58 NC_004684.1 + 48966 0.67 0.565471
Target:  5'- gCGGGgugGCCGggGCGGGCGcGUCGGUGc- -3'
miRNA:   3'- -GCCUa--UGGC--UGUCCGUcCAGCCGCuu -5'
19004 5' -58 NC_004684.1 + 47890 0.67 0.565471
Target:  5'- uGGAU-CaggucguaGGCAGGCcacGGUCGGCGGc -3'
miRNA:   3'- gCCUAuGg-------CUGUCCGu--CCAGCCGCUu -5'
19004 5' -58 NC_004684.1 + 61803 0.67 0.554962
Target:  5'- uCGGccccgUCGGCAGGCGGGUCgccuugcaGGCGGu -3'
miRNA:   3'- -GCCuau--GGCUGUCCGUCCAG--------CCGCUu -5'
19004 5' -58 NC_004684.1 + 64895 0.67 0.544511
Target:  5'- cCGGGUACCGAaaucaguGGGUcuuGG-CGGCGAc -3'
miRNA:   3'- -GCCUAUGGCUg------UCCGu--CCaGCCGCUu -5'
19004 5' -58 NC_004684.1 + 38463 0.67 0.534124
Target:  5'- gCGcGAUcaccGCCGACaAGGCAGGcacCGGCGu- -3'
miRNA:   3'- -GC-CUA----UGGCUG-UCCGUCCa--GCCGCuu -5'
19004 5' -58 NC_004684.1 + 22381 0.71 0.339432
Target:  5'- gCGGuggaCGuGCAGGCGGcGUCGGCGGAu -3'
miRNA:   3'- -GCCuaugGC-UGUCCGUC-CAGCCGCUU- -5'
19004 5' -58 NC_004684.1 + 36778 0.7 0.398486
Target:  5'- cCGG-UGCCGAC--GCuGGUCGGCGGc -3'
miRNA:   3'- -GCCuAUGGCUGucCGuCCAGCCGCUu -5'
19004 5' -58 NC_004684.1 + 65794 0.69 0.415613
Target:  5'- aCGGcgACCGAugccgugcacCGGGCAGGUgacccggaggcacCGGCGGc -3'
miRNA:   3'- -GCCuaUGGCU----------GUCCGUCCA-------------GCCGCUu -5'
19004 5' -58 NC_004684.1 + 45545 0.69 0.435058
Target:  5'- cCGGcgcACCGGgGGaCAGGUCGGUGAGg -3'
miRNA:   3'- -GCCua-UGGCUgUCcGUCCAGCCGCUU- -5'
19004 5' -58 NC_004684.1 + 23664 0.69 0.435058
Target:  5'- cCGGGUacACCGAC-GGCcuGGUCGGCc-- -3'
miRNA:   3'- -GCCUA--UGGCUGuCCGu-CCAGCCGcuu -5'
19004 5' -58 NC_004684.1 + 50579 0.68 0.483374
Target:  5'- gGGAgguugagccuaUGCCGuCGGGUcggcGGUCGGCGGGu -3'
miRNA:   3'- gCCU-----------AUGGCuGUCCGu---CCAGCCGCUU- -5'
19004 5' -58 NC_004684.1 + 13448 0.66 0.628261
Target:  5'- uCGGAUGgugauuuCCGGgAGGCugaucAGGUCGGuCGGGu -3'
miRNA:   3'- -GCCUAU-------GGCUgUCCG-----UCCAGCC-GCUU- -5'
19004 5' -58 NC_004684.1 + 57940 0.7 0.389656
Target:  5'- gGGAcGCUGGCaaucGGGCGGGUacCGGCGGc -3'
miRNA:   3'- gCCUaUGGCUG----UCCGUCCA--GCCGCUu -5'
19004 5' -58 NC_004684.1 + 25532 0.69 0.425733
Target:  5'- cCGGAgcaguCCGACAGGCcagcggcaAGGUCGGaGGc -3'
miRNA:   3'- -GCCUau---GGCUGUCCG--------UCCAGCCgCUu -5'
19004 5' -58 NC_004684.1 + 13024 0.69 0.444501
Target:  5'- gGGGUGCCGAC-GGCGGcgaaGUUGGcCGAc -3'
miRNA:   3'- gCCUAUGGCUGuCCGUC----CAGCC-GCUu -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.