miRNA display CGI


Results 1 - 20 of 38 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
17200 3' -49.2 NC_004333.2 + 40045 1.12 0.002353
Target:  5'- gCGGACGCCUCGCAAGACAUCAAAAUCg -3'
miRNA:   3'- -GCCUGCGGAGCGUUCUGUAGUUUUAG- -5'
17200 3' -49.2 NC_004333.2 + 46198 0.72 0.672055
Target:  5'- uGGGCGCguCUCGCGccggaucagcgccAGGCGcUCGAAGUCa -3'
miRNA:   3'- gCCUGCG--GAGCGU-------------UCUGU-AGUUUUAG- -5'
17200 3' -49.2 NC_004333.2 + 13017 0.72 0.684738
Target:  5'- cCGGgcaucaACGCCUgCGCGAGGucCAUCAAGAUg -3'
miRNA:   3'- -GCC------UGCGGA-GCGUUCU--GUAGUUUUAg -5'
17200 3' -49.2 NC_004333.2 + 38804 0.72 0.696209
Target:  5'- gGGGCGCC--GCGAGACGgagGAGAUCa -3'
miRNA:   3'- gCCUGCGGagCGUUCUGUag-UUUUAG- -5'
17200 3' -49.2 NC_004333.2 + 37363 0.7 0.763116
Target:  5'- uGGaACGCgUCGCcuucGACAUCGAcGUCg -3'
miRNA:   3'- gCC-UGCGgAGCGuu--CUGUAGUUuUAG- -5'
17200 3' -49.2 NC_004333.2 + 39867 0.7 0.77382
Target:  5'- uCGGACgGCCacagCGCGAGcgGCGUCGgucGGAUCg -3'
miRNA:   3'- -GCCUG-CGGa---GCGUUC--UGUAGU---UUUAG- -5'
17200 3' -49.2 NC_004333.2 + 36364 0.7 0.780166
Target:  5'- uCGGGCGgCgcguaucgcauggCGCAGGACGUCGcguGUCg -3'
miRNA:   3'- -GCCUGCgGa------------GCGUUCUGUAGUuu-UAG- -5'
17200 3' -49.2 NC_004333.2 + 13848 0.7 0.794727
Target:  5'- aCGGGCGCCgCGuCGAGcGCAUUGAGcgCg -3'
miRNA:   3'- -GCCUGCGGaGC-GUUC-UGUAGUUUuaG- -5'
17200 3' -49.2 NC_004333.2 + 15821 0.7 0.794727
Target:  5'- -cGACGCCUgcgcacguucCGCAGGuCAUCAuuGUCc -3'
miRNA:   3'- gcCUGCGGA----------GCGUUCuGUAGUuuUAG- -5'
17200 3' -49.2 NC_004333.2 + 7152 0.7 0.794727
Target:  5'- uGuACGCaacugCGCGAGACGUCAAcAUCa -3'
miRNA:   3'- gCcUGCGga---GCGUUCUGUAGUUuUAG- -5'
17200 3' -49.2 NC_004333.2 + 11956 0.7 0.804903
Target:  5'- gCGGucgaGCGCCUUGCAcGcGCGUCGAcGAUCg -3'
miRNA:   3'- -GCC----UGCGGAGCGUuC-UGUAGUU-UUAG- -5'
17200 3' -49.2 NC_004333.2 + 7680 0.7 0.804903
Target:  5'- -aGACGCaaUCGCAGGGCAUCA---UCa -3'
miRNA:   3'- gcCUGCGg-AGCGUUCUGUAGUuuuAG- -5'
17200 3' -49.2 NC_004333.2 + 31383 0.69 0.814876
Target:  5'- gCGGGCGCCgUGCucGGCGUCGGc--- -3'
miRNA:   3'- -GCCUGCGGaGCGuuCUGUAGUUuuag -5'
17200 3' -49.2 NC_004333.2 + 21185 0.68 0.869831
Target:  5'- aGGGCG-CUCGCGA-ACAUCAGAc-- -3'
miRNA:   3'- gCCUGCgGAGCGUUcUGUAGUUUuag -5'
17200 3' -49.2 NC_004333.2 + 30457 0.68 0.869831
Target:  5'- cCGGuCGCUUCGaCGuucGGCAUCGcgGUCg -3'
miRNA:   3'- -GCCuGCGGAGC-GUu--CUGUAGUuuUAG- -5'
17200 3' -49.2 NC_004333.2 + 27691 0.68 0.87808
Target:  5'- --cGCGCUgcaGCGAGACGUCGuAGGUCa -3'
miRNA:   3'- gccUGCGGag-CGUUCUGUAGU-UUUAG- -5'
17200 3' -49.2 NC_004333.2 + 9247 0.68 0.87808
Target:  5'- gGGGCGCCUCGCcgcgugcGGCAUagccuUCg -3'
miRNA:   3'- gCCUGCGGAGCGuu-----CUGUAguuuuAG- -5'
17200 3' -49.2 NC_004333.2 + 8710 0.68 0.886046
Target:  5'- cCGGGCGCCgcgccgaGCucGACGUCGcgcAUCg -3'
miRNA:   3'- -GCCUGCGGag-----CGuuCUGUAGUuu-UAG- -5'
17200 3' -49.2 NC_004333.2 + 45188 0.68 0.886046
Target:  5'- gCGcGAuCGCCgCGCAgacAGGCGUCGAGuAUCg -3'
miRNA:   3'- -GC-CU-GCGGaGCGU---UCUGUAGUUU-UAG- -5'
17200 3' -49.2 NC_004333.2 + 29989 0.67 0.903972
Target:  5'- cCGG-CGCCgagCGCGAGcACcaugcggcgccgcucGUCGGGAUCg -3'
miRNA:   3'- -GCCuGCGGa--GCGUUC-UG---------------UAGUUUUAG- -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.