miRNA display CGI


Results 1 - 20 of 29 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
1364 5' -55.6 NC_001335.1 + 20961 1.11 0.000633
Target:  5'- cGACGCGAUCUCCGAUCCAGCAGUGCCc -3'
miRNA:   3'- -CUGCGCUAGAGGCUAGGUCGUCACGG- -5'
1364 5' -55.6 NC_001335.1 + 430 0.77 0.175823
Target:  5'- uGGCGCGGcCUUgaGAUCCGGCGGUuGCCg -3'
miRNA:   3'- -CUGCGCUaGAGg-CUAGGUCGUCA-CGG- -5'
1364 5' -55.6 NC_001335.1 + 8491 0.75 0.216143
Target:  5'- uGCGgGGUCUUCGAUCUccuccauaccggggAGCGGUGCUg -3'
miRNA:   3'- cUGCgCUAGAGGCUAGG--------------UCGUCACGG- -5'
1364 5' -55.6 NC_001335.1 + 13054 0.72 0.335602
Target:  5'- aACGCGuugacCCGAUCCGGCguaaccgccugAGUGCCa -3'
miRNA:   3'- cUGCGCuaga-GGCUAGGUCG-----------UCACGG- -5'
1364 5' -55.6 NC_001335.1 + 12547 0.72 0.342983
Target:  5'- uGCGCGGUUUCCGGggcaccuUCCAGCcgccAGUGgCg -3'
miRNA:   3'- cUGCGCUAGAGGCU-------AGGUCG----UCACgG- -5'
1364 5' -55.6 NC_001335.1 + 13003 0.72 0.352163
Target:  5'- uGACuGCGAUCacgaagCUGAUCCuccGguGUGCCg -3'
miRNA:   3'- -CUG-CGCUAGa-----GGCUAGGu--CguCACGG- -5'
1364 5' -55.6 NC_001335.1 + 11465 0.71 0.396042
Target:  5'- aGCGgagaaGAUCUCCaucGUCCAGCAGUucGCCc -3'
miRNA:   3'- cUGCg----CUAGAGGc--UAGGUCGUCA--CGG- -5'
1364 5' -55.6 NC_001335.1 + 1302 0.7 0.433587
Target:  5'- uGACGC---CUCCGGUaCCGGCGcUGCCg -3'
miRNA:   3'- -CUGCGcuaGAGGCUA-GGUCGUcACGG- -5'
1364 5' -55.6 NC_001335.1 + 29376 0.7 0.453118
Target:  5'- uGCGCGAggUCCGcgCCuGCAGUGg- -3'
miRNA:   3'- cUGCGCUagAGGCuaGGuCGUCACgg -5'
1364 5' -55.6 NC_001335.1 + 50778 0.7 0.453118
Target:  5'- gGGCGCGuuggCUCgCGGUgCCuuacggauGGCGGUGCCu -3'
miRNA:   3'- -CUGCGCua--GAG-GCUA-GG--------UCGUCACGG- -5'
1364 5' -55.6 NC_001335.1 + 40654 0.69 0.473119
Target:  5'- cACGCGGagaggcccaggaUCgCCGAUCCGGCgaugAGUGCg -3'
miRNA:   3'- cUGCGCU------------AGaGGCUAGGUCG----UCACGg -5'
1364 5' -55.6 NC_001335.1 + 1823 0.69 0.493555
Target:  5'- uGACGCGGUCcuugaCCGAgUCCuucauguagAGCuuGGUGCCg -3'
miRNA:   3'- -CUGCGCUAGa----GGCU-AGG---------UCG--UCACGG- -5'
1364 5' -55.6 NC_001335.1 + 16151 0.69 0.514386
Target:  5'- cGGCGUcaucgccuaGAUCUCCGAgcccCCGGC--UGCCg -3'
miRNA:   3'- -CUGCG---------CUAGAGGCUa---GGUCGucACGG- -5'
1364 5' -55.6 NC_001335.1 + 5584 0.69 0.524935
Target:  5'- -cCGCcccaGAUCaggaCGAUgcCCAGCAGUGCCg -3'
miRNA:   3'- cuGCG----CUAGag--GCUA--GGUCGUCACGG- -5'
1364 5' -55.6 NC_001335.1 + 9888 0.68 0.545197
Target:  5'- cGACuCGAUggCCGGcuguggcUUCGGCGGUGCCg -3'
miRNA:   3'- -CUGcGCUAgaGGCU-------AGGUCGUCACGG- -5'
1364 5' -55.6 NC_001335.1 + 44446 0.68 0.54627
Target:  5'- gGAUGaCGAUCUCCuGAUCCGGguGaacgaGCa -3'
miRNA:   3'- -CUGC-GCUAGAGG-CUAGGUCguCa----CGg -5'
1364 5' -55.6 NC_001335.1 + 35477 0.68 0.578759
Target:  5'- -cCGcCGAUCUCCGAguUCUugGGagggaGGUGCCa -3'
miRNA:   3'- cuGC-GCUAGAGGCU--AGG--UCg----UCACGG- -5'
1364 5' -55.6 NC_001335.1 + 32891 0.67 0.588593
Target:  5'- uGCGCGA-CUCgauggCGGUCCAGCAcuccaccgaugggGUGUCg -3'
miRNA:   3'- cUGCGCUaGAG-----GCUAGGUCGU-------------CACGG- -5'
1364 5' -55.6 NC_001335.1 + 11590 0.67 0.611644
Target:  5'- uGCGgGAUCuUCUGG-CCGGUcGUGCCc -3'
miRNA:   3'- cUGCgCUAG-AGGCUaGGUCGuCACGG- -5'
1364 5' -55.6 NC_001335.1 + 4813 0.67 0.622654
Target:  5'- ---aCGGUUUCCGAcCCAGuCGGUGCg -3'
miRNA:   3'- cugcGCUAGAGGCUaGGUC-GUCACGg -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.