miRNA display CGI


Results 1 - 20 of 33 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
23221 5' -57.1 NC_005259.1 + 68880 0.73 0.297039
Target:  5'- gGGCGCGCCGAUGAGGUagaugaGGCG-GUg -3'
miRNA:   3'- -UCGUGUGGCUGCUCUAgg----CCGCuCAa -5'
23221 5' -57.1 NC_005259.1 + 67891 0.66 0.646913
Target:  5'- cGCGCAUCGuuCGgcuguGGGUCuCGGCGAGg- -3'
miRNA:   3'- uCGUGUGGCu-GC-----UCUAG-GCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 65698 0.72 0.343035
Target:  5'- gAGCGgGCCGAguaggaCGAGGUCacgcccaaGGCGAGUUg -3'
miRNA:   3'- -UCGUgUGGCU------GCUCUAGg-------CCGCUCAA- -5'
23221 5' -57.1 NC_005259.1 + 65185 0.71 0.351183
Target:  5'- aGGCGCuggUCGAUcAGAUCCGGUGGGUa -3'
miRNA:   3'- -UCGUGu--GGCUGcUCUAGGCCGCUCAa -5'
23221 5' -57.1 NC_005259.1 + 64593 0.73 0.269124
Target:  5'- cAGCACACCaACGAGGUgacugaCGGCGAGc- -3'
miRNA:   3'- -UCGUGUGGcUGCUCUAg-----GCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 63850 0.7 0.439943
Target:  5'- aAGCGCguACCGGCGAGGUggCCGGCuGGc- -3'
miRNA:   3'- -UCGUG--UGGCUGCUCUA--GGCCGcUCaa -5'
23221 5' -57.1 NC_005259.1 + 63616 0.67 0.62538
Target:  5'- cGGC-CACCGACGccugauAGAUCaucguGGCGAGc- -3'
miRNA:   3'- -UCGuGUGGCUGC------UCUAGg----CCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 61743 0.69 0.509116
Target:  5'- uGUGCGuCCGGCGAGAUCUGuGCGGc-- -3'
miRNA:   3'- uCGUGU-GGCUGCUCUAGGC-CGCUcaa -5'
23221 5' -57.1 NC_005259.1 + 58740 0.71 0.385128
Target:  5'- uGGCaccgGCACCGGCGAaGUUCGGCGAa-- -3'
miRNA:   3'- -UCG----UGUGGCUGCUcUAGGCCGCUcaa -5'
23221 5' -57.1 NC_005259.1 + 52801 1.05 0.00171
Target:  5'- cAGCACACCGACGAGAUCCGGCGAGUUu -3'
miRNA:   3'- -UCGUGUGGCUGCUCUAGGCCGCUCAA- -5'
23221 5' -57.1 NC_005259.1 + 51312 0.67 0.571799
Target:  5'- cAGUGCGCCGAgaaucucuuugaCGAGGaugCCGGUGAGc- -3'
miRNA:   3'- -UCGUGUGGCU------------GCUCUa--GGCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 46972 0.66 0.646913
Target:  5'- uGGcCACGCCGcCGAuGAUCgGGcCGAGg- -3'
miRNA:   3'- -UC-GUGUGGCuGCU-CUAGgCC-GCUCaa -5'
23221 5' -57.1 NC_005259.1 + 45954 0.66 0.67909
Target:  5'- cAGCACguuGCCGACGuugccGAgcuUGGCGAGUg -3'
miRNA:   3'- -UCGUG---UGGCUGCu----CUag-GCCGCUCAa -5'
23221 5' -57.1 NC_005259.1 + 43053 0.72 0.327152
Target:  5'- cAGCGaACCGACGGGGUC-GGUGAGg- -3'
miRNA:   3'- -UCGUgUGGCUGCUCUAGgCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 36881 0.7 0.430499
Target:  5'- cGCccGCGCCGACGAcg-CCGGUGAGc- -3'
miRNA:   3'- uCG--UGUGGCUGCUcuaGGCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 35683 0.69 0.498936
Target:  5'- uGCACAgCGACGccGUgcCCGGCGAGg- -3'
miRNA:   3'- uCGUGUgGCUGCucUA--GGCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 33802 0.76 0.178209
Target:  5'- gAGguCGCCaucgaucaucguGACGGGGUCCGGCGAGa- -3'
miRNA:   3'- -UCguGUGG------------CUGCUCUAGGCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 26435 0.66 0.689743
Target:  5'- cGCAcCGCCGAgCGGGcgggCCGGUGGGc- -3'
miRNA:   3'- uCGU-GUGGCU-GCUCua--GGCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 25919 0.67 0.571799
Target:  5'- gAGC-CGCCGcCGccGGUCCGGUGAGc- -3'
miRNA:   3'- -UCGuGUGGCuGCu-CUAGGCCGCUCaa -5'
23221 5' -57.1 NC_005259.1 + 24076 0.68 0.561193
Target:  5'- cGUGCACCG-CGAGAUcaCCGGCaGGGc- -3'
miRNA:   3'- uCGUGUGGCuGCUCUA--GGCCG-CUCaa -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.