miRNA display CGI


Results 1 - 20 of 26 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
5752 3' -54.3 NC_001806.1 + 13526 0.98 0.025615
Target:  5'- gCCUCCGACGGUGCGUUuaGGAGCACGc -3'
miRNA:   3'- -GGAGGCUGCCACGCAAuaCCUCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 28714 0.73 0.69702
Target:  5'- aCCcCCGAcucCGGUGCGUc-UGGAGgGCGg -3'
miRNA:   3'- -GGaGGCU---GCCACGCAauACCUCgUGC- -5'
5752 3' -54.3 NC_001806.1 + 109403 0.72 0.716977
Target:  5'- cCCgacCCGGCGaUGgGUcGUGGGGCGCGg -3'
miRNA:   3'- -GGa--GGCUGCcACgCAaUACCUCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 132767 0.71 0.765445
Target:  5'- gCCUCCugcccGCGGUGCGggAggcGGuGGCGCGg -3'
miRNA:   3'- -GGAGGc----UGCCACGCaaUa--CC-UCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 129081 0.7 0.836421
Target:  5'- gCC-CCGACGGccaggUGCGUgacUGUGGuccGCGCGc -3'
miRNA:   3'- -GGaGGCUGCC-----ACGCA---AUACCu--CGUGC- -5'
5752 3' -54.3 NC_001806.1 + 30625 0.69 0.875056
Target:  5'- cCCUCCGACucaGG-GCcggg-GGGGCGCGg -3'
miRNA:   3'- -GGAGGCUG---CCaCGcaauaCCUCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 136743 0.68 0.914277
Target:  5'- --cCCGGuaagUGGUgGCGUUGaGGAGCGCGu -3'
miRNA:   3'- ggaGGCU----GCCA-CGCAAUaCCUCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 30496 0.68 0.918309
Target:  5'- gCCUCugucgagcaggaggCGGCGGUGCGUccgaGGAagagGCGCGg -3'
miRNA:   3'- -GGAG--------------GCUGCCACGCAaua-CCU----CGUGC- -5'
5752 3' -54.3 NC_001806.1 + 98581 0.67 0.92549
Target:  5'- uUCUUCGAgGGgauggGCGaccUGGGGCGCGc -3'
miRNA:   3'- -GGAGGCUgCCa----CGCaauACCUCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 67775 0.67 0.930739
Target:  5'- gCCUCCgGugGGuUGUGUUGgccgacUGGcccGGCGCGu -3'
miRNA:   3'- -GGAGG-CugCC-ACGCAAU------ACC---UCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 29989 0.67 0.930739
Target:  5'- cCCUCCGGgGGgguugGgGU--UGGGGUugGg -3'
miRNA:   3'- -GGAGGCUgCCa----CgCAauACCUCGugC- -5'
5752 3' -54.3 NC_001806.1 + 96095 0.67 0.930739
Target:  5'- gCCUCgGucuacCGGUGCGg---GGAGCuCGa -3'
miRNA:   3'- -GGAGgCu----GCCACGCaauaCCUCGuGC- -5'
5752 3' -54.3 NC_001806.1 + 90519 0.67 0.935751
Target:  5'- aCCUCaaacacgagaCGACGGgggagGCGcUGUGuGAGCGCc -3'
miRNA:   3'- -GGAG----------GCUGCCa----CGCaAUAC-CUCGUGc -5'
5752 3' -54.3 NC_001806.1 + 20390 0.67 0.935751
Target:  5'- gCgUCCGGCGG-GCGggAccggGGGGCcCGg -3'
miRNA:   3'- -GgAGGCUGCCaCGCaaUa---CCUCGuGC- -5'
5752 3' -54.3 NC_001806.1 + 35323 0.67 0.935751
Target:  5'- --cCCGACGcGgGU-UUAUGGAGCGCGg -3'
miRNA:   3'- ggaGGCUGC-CaCGcAAUACCUCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 57366 0.67 0.935751
Target:  5'- uCCUCCGGggacacggccCGGUGgcuguCGUUGcGGAGCAUc -3'
miRNA:   3'- -GGAGGCU----------GCCAC-----GCAAUaCCUCGUGc -5'
5752 3' -54.3 NC_001806.1 + 148165 0.67 0.935751
Target:  5'- ---gCGGCGGcgccucUGCGUgggGGGGCGCGg -3'
miRNA:   3'- ggagGCUGCC------ACGCAauaCCUCGUGC- -5'
5752 3' -54.3 NC_001806.1 + 35497 0.67 0.945066
Target:  5'- uCCUCCGGagaGGgcgagGCGUc--GGAGCGgGg -3'
miRNA:   3'- -GGAGGCUg--CCa----CGCAauaCCUCGUgC- -5'
5752 3' -54.3 NC_001806.1 + 66414 0.67 0.945066
Target:  5'- ---aCGuACaGGUGCGUgcgGUGGGGCGCc -3'
miRNA:   3'- ggagGC-UG-CCACGCAa--UACCUCGUGc -5'
5752 3' -54.3 NC_001806.1 + 23265 0.66 0.957297
Target:  5'- gCCUCCGccGCGccGCGggA-GGGGCGCa -3'
miRNA:   3'- -GGAGGC--UGCcaCGCaaUaCCUCGUGc -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.