miRNA display CGI


Results 1 - 20 of 39 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
19735 3' -55 NC_004687.1 + 78617 0.65 0.953278
Target:  5'- gGCGaguagaCCAGGGUCUUGGcCGgaggCGGg -3'
miRNA:   3'- -UGCaaga--GGUCCCGGAACCaGUa---GCC- -5'
19735 3' -55 NC_004687.1 + 56949 0.65 0.953278
Target:  5'- cCGgcuuggCCGGGccacgaGCCUUGGUUGUCGGc -3'
miRNA:   3'- uGCaaga--GGUCC------CGGAACCAGUAGCC- -5'
19735 3' -55 NC_004687.1 + 67666 0.65 0.952478
Target:  5'- cGCGUUgUCCAGGGUggUGGacgggaccacgcCGUUGGg -3'
miRNA:   3'- -UGCAAgAGGUCCCGgaACCa-----------GUAGCC- -5'
19735 3' -55 NC_004687.1 + 111126 0.66 0.949187
Target:  5'- uUGUUCUUCGGGGCCgcacccGGcgCAgcCGGg -3'
miRNA:   3'- uGCAAGAGGUCCCGGaa----CCa-GUa-GCC- -5'
19735 3' -55 NC_004687.1 + 8016 0.66 0.949187
Target:  5'- cCGcUCgUCCGGGGugcCCUUGGg-GUCGGg -3'
miRNA:   3'- uGCaAG-AGGUCCC---GGAACCagUAGCC- -5'
19735 3' -55 NC_004687.1 + 17177 0.66 0.944865
Target:  5'- gGCG-UCgagcuugccgUCCAGGGCCUcGGUCAg--- -3'
miRNA:   3'- -UGCaAG----------AGGUCCCGGAaCCAGUagcc -5'
19735 3' -55 NC_004687.1 + 102271 0.66 0.935517
Target:  5'- cACGagcUUgUCCAGGGCCUugcgggccUGGUUGgcgcCGGa -3'
miRNA:   3'- -UGC---AAgAGGUCCCGGA--------ACCAGUa---GCC- -5'
19735 3' -55 NC_004687.1 + 65148 0.66 0.930487
Target:  5'- aACGUcUUCCGGGGCUUcuaUGGcCAgccCGGc -3'
miRNA:   3'- -UGCAaGAGGUCCCGGA---ACCaGUa--GCC- -5'
19735 3' -55 NC_004687.1 + 121114 0.67 0.925219
Target:  5'- cACG---UCCGGGGCCgggUGGacuUCAUCGu -3'
miRNA:   3'- -UGCaagAGGUCCCGGa--ACC---AGUAGCc -5'
19735 3' -55 NC_004687.1 + 108639 0.67 0.925219
Target:  5'- gGCGUaCUCgguCAGGGCCUggaccucGUCGUCGu -3'
miRNA:   3'- -UGCAaGAG---GUCCCGGAac-----CAGUAGCc -5'
19735 3' -55 NC_004687.1 + 20375 0.67 0.925219
Target:  5'- uGCGg---CCAGGGCCagcGGUaggcCAUCGGc -3'
miRNA:   3'- -UGCaagaGGUCCCGGaa-CCA----GUAGCC- -5'
19735 3' -55 NC_004687.1 + 31109 0.67 0.919713
Target:  5'- gACGggcaCUCCAGcGGCgaaGGUUGUCGGg -3'
miRNA:   3'- -UGCaa--GAGGUC-CCGgaaCCAGUAGCC- -5'
19735 3' -55 NC_004687.1 + 82917 0.67 0.919713
Target:  5'- gACGc-CUCCAGGGCCgaaaggccaaUGG-CAUCGu -3'
miRNA:   3'- -UGCaaGAGGUCCCGGa---------ACCaGUAGCc -5'
19735 3' -55 NC_004687.1 + 83682 0.67 0.919713
Target:  5'- gGCGgUCUCC-GGGC--UGGaacaUCAUCGGg -3'
miRNA:   3'- -UGCaAGAGGuCCCGgaACC----AGUAGCC- -5'
19735 3' -55 NC_004687.1 + 20498 0.67 0.918015
Target:  5'- uCGUUCUuccggucggCCAGGGCCUgcaucaUGGacccggccucgaucUCGUUGGg -3'
miRNA:   3'- uGCAAGA---------GGUCCCGGA------ACC--------------AGUAGCC- -5'
19735 3' -55 NC_004687.1 + 29136 0.67 0.901773
Target:  5'- gACGggCcCgCAGGGCaguCUUGGUCAUCa- -3'
miRNA:   3'- -UGCaaGaG-GUCCCG---GAACCAGUAGcc -5'
19735 3' -55 NC_004687.1 + 53971 0.67 0.901773
Target:  5'- cCGaUUCUCCGGccuGGCCUccGGUCGUCu- -3'
miRNA:   3'- uGC-AAGAGGUC---CCGGAa-CCAGUAGcc -5'
19735 3' -55 NC_004687.1 + 92122 0.68 0.888649
Target:  5'- aGCGUcgccgCUCCGGGGCCgcgaccaaGGUCca-GGg -3'
miRNA:   3'- -UGCAa----GAGGUCCCGGaa------CCAGuagCC- -5'
19735 3' -55 NC_004687.1 + 154434 0.68 0.879633
Target:  5'- uACGcgCUCCAGGGCCUccggauuuuuccggUGGUgcUCa- -3'
miRNA:   3'- -UGCaaGAGGUCCCGGA--------------ACCAguAGcc -5'
19735 3' -55 NC_004687.1 + 141896 0.68 0.867284
Target:  5'- uGCGgauggUCUCCucggcacGGGCCUUGGccugcUCA-CGGg -3'
miRNA:   3'- -UGCa----AGAGGu------CCCGGAACC-----AGUaGCC- -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.