miRNA display CGI


Results 1 - 20 of 22 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
11603 5' -58.1 NC_003085.1 + 46184 0.66 0.545672
Target:  5'- gUAGGCggacaUCGUAggcUCCAuGCCcgcucaugGCGGGCGa -3'
miRNA:   3'- gGUCCG-----AGCAU---AGGU-CGGa-------CGUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 30023 0.66 0.544609
Target:  5'- aCGGGUUgGUGUCCAuccacacGCCgaacCAGGUGg -3'
miRNA:   3'- gGUCCGAgCAUAGGU-------CGGac--GUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 35246 0.66 0.5141
Target:  5'- gUCuGGCugcauUCGga-CCGGCuCUGCAGGCa -3'
miRNA:   3'- -GGuCCG-----AGCauaGGUCG-GACGUCCGc -5'
11603 5' -58.1 NC_003085.1 + 24672 0.66 0.503739
Target:  5'- aCGGGCUgagcggcaccaUGU-UCCGGUCcuugUGCGGGCGg -3'
miRNA:   3'- gGUCCGA-----------GCAuAGGUCGG----ACGUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 19767 0.66 0.49347
Target:  5'- aCCAGGCUCGUGgagguacucCCAcGUC-GCgAGGUGg -3'
miRNA:   3'- -GGUCCGAGCAUa--------GGU-CGGaCG-UCCGC- -5'
11603 5' -58.1 NC_003085.1 + 43541 0.66 0.492449
Target:  5'- -aAGGCggCGcGUCCAGCUUGCgcgagauAGGCc -3'
miRNA:   3'- ggUCCGa-GCaUAGGUCGGACG-------UCCGc -5'
11603 5' -58.1 NC_003085.1 + 36769 0.67 0.473229
Target:  5'- aCCAgcGGCguggCGUcAUCCAcCCggagGCAGGCGc -3'
miRNA:   3'- -GGU--CCGa---GCA-UAGGUcGGa---CGUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 8199 0.67 0.434057
Target:  5'- gCAuGGCcCGccaGUCCAGCCUGCcgcgcguGGCGu -3'
miRNA:   3'- gGU-CCGaGCa--UAGGUCGGACGu------CCGC- -5'
11603 5' -58.1 NC_003085.1 + 13790 0.67 0.434057
Target:  5'- -aAGGCgagCGUGacgCCAGUCUGCguggAGGUGg -3'
miRNA:   3'- ggUCCGa--GCAUa--GGUCGGACG----UCCGC- -5'
11603 5' -58.1 NC_003085.1 + 43450 0.68 0.424561
Target:  5'- uCCGGGCguacauccgCGc--CCAGCC-GUAGGCGa -3'
miRNA:   3'- -GGUCCGa--------GCauaGGUCGGaCGUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 43035 0.68 0.405946
Target:  5'- aCCGGGC-CGUGUCgagCGGCCcGCuGGgGa -3'
miRNA:   3'- -GGUCCGaGCAUAG---GUCGGaCGuCCgC- -5'
11603 5' -58.1 NC_003085.1 + 29064 0.68 0.387853
Target:  5'- cCCuGGggCGUGUCCgcgaAGUCUGUGGGCu -3'
miRNA:   3'- -GGuCCgaGCAUAGG----UCGGACGUCCGc -5'
11603 5' -58.1 NC_003085.1 + 34483 0.69 0.336851
Target:  5'- aCAGGC-CaUGUCCAGCCUcccGgAGGUGg -3'
miRNA:   3'- gGUCCGaGcAUAGGUCGGA---CgUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 35905 0.7 0.320971
Target:  5'- cCCAgGGCcaugccaCGg--CCAGCCcGCAGGCGg -3'
miRNA:   3'- -GGU-CCGa------GCauaGGUCGGaCGUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 20113 0.7 0.305659
Target:  5'- gCgGGGCUgGaGUCCGGCCUagAGGCGc -3'
miRNA:   3'- -GgUCCGAgCaUAGGUCGGAcgUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 10054 0.7 0.298215
Target:  5'- gCAGGCUgG-AUaCgAGCCUGgAGGCGa -3'
miRNA:   3'- gGUCCGAgCaUA-GgUCGGACgUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 1937 0.71 0.283751
Target:  5'- gCGGGCUCGUcgGUCCcgguGGCCguaucGCAguGGCGg -3'
miRNA:   3'- gGUCCGAGCA--UAGG----UCGGa----CGU--CCGC- -5'
11603 5' -58.1 NC_003085.1 + 39756 0.71 0.250028
Target:  5'- aCAGGCguucCGgcgcUCCAGUCUGCAGGg- -3'
miRNA:   3'- gGUCCGa---GCau--AGGUCGGACGUCCgc -5'
11603 5' -58.1 NC_003085.1 + 29134 0.72 0.225489
Target:  5'- aCCAGGCgaUUGaGUCC-GCCUacucGCAGGCGa -3'
miRNA:   3'- -GGUCCG--AGCaUAGGuCGGA----CGUCCGC- -5'
11603 5' -58.1 NC_003085.1 + 3929 0.73 0.208451
Target:  5'- gCCAGGCUCGcGUCgCgGGCCUGCAaaccGGgGa -3'
miRNA:   3'- -GGUCCGAGCaUAG-G-UCGGACGU----CCgC- -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.