miRNA display CGI


Results 1 - 20 of 67 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
11434 3' -59.6 NC_003085.1 + 36765 1.08 0.00037
Target:  5'- gCGCACCAGCGGCGUGGCGUCAUCCACc -3'
miRNA:   3'- -GCGUGGUCGCCGCACCGCAGUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 19804 0.87 0.013687
Target:  5'- aCGCACCGGCGGCGUGGacauCGUCGaCCACu -3'
miRNA:   3'- -GCGUGGUCGCCGCACC----GCAGUaGGUG- -5'
11434 3' -59.6 NC_003085.1 + 34340 0.82 0.034693
Target:  5'- uCGCACCAcGCGGCGcGGCGcucCAUCCGCu -3'
miRNA:   3'- -GCGUGGU-CGCCGCaCCGCa--GUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 48691 0.79 0.054949
Target:  5'- gCGCACCGuugcGCGGCGUGGCGgacUCGcCCACc -3'
miRNA:   3'- -GCGUGGU----CGCCGCACCGC---AGUaGGUG- -5'
11434 3' -59.6 NC_003085.1 + 26697 0.79 0.059861
Target:  5'- cCGuCGCCAccGCGGCG-GGCGUCGUCgGCg -3'
miRNA:   3'- -GC-GUGGU--CGCCGCaCCGCAGUAGgUG- -5'
11434 3' -59.6 NC_003085.1 + 45265 0.75 0.120791
Target:  5'- gCGCGUCAGCGGCGUccuGCGUCugcUCCACc -3'
miRNA:   3'- -GCGUGGUCGCCGCAc--CGCAGu--AGGUG- -5'
11434 3' -59.6 NC_003085.1 + 24131 0.74 0.127619
Target:  5'- gCGCGCCauccaccuugucGGUGGCcaccacGGCGUCGUCCACc -3'
miRNA:   3'- -GCGUGG------------UCGCCGca----CCGCAGUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 25238 0.74 0.130092
Target:  5'- gGCGCCGcccuggugcgcuccGCGGCG-GGCGUCGUCguCg -3'
miRNA:   3'- gCGUGGU--------------CGCCGCaCCGCAGUAGguG- -5'
11434 3' -59.6 NC_003085.1 + 43201 0.73 0.162961
Target:  5'- gCGCAUCccacGGCGGCGUcguguaGGCGUCGaCCAUg -3'
miRNA:   3'- -GCGUGG----UCGCCGCA------CCGCAGUaGGUG- -5'
11434 3' -59.6 NC_003085.1 + 37208 0.72 0.17193
Target:  5'- gGCGCCAGCGGCcuucaauucUGGCGgcccagCcgCCGCg -3'
miRNA:   3'- gCGUGGUCGCCGc--------ACCGCa-----GuaGGUG- -5'
11434 3' -59.6 NC_003085.1 + 15626 0.72 0.181338
Target:  5'- uGgGCCGGUGGcCG-GGCGgagagCGUCCACa -3'
miRNA:   3'- gCgUGGUCGCC-GCaCCGCa----GUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 48399 0.71 0.199946
Target:  5'- aGCGCCgcauugucugccucGGCGGCGcUGGCuUCcUCCGCa -3'
miRNA:   3'- gCGUGG--------------UCGCCGC-ACCGcAGuAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 36911 0.71 0.201526
Target:  5'- aGCccgGCCAGCGGCGcgGGUGgCAUCCc- -3'
miRNA:   3'- gCG---UGGUCGCCGCa-CCGCaGUAGGug -5'
11434 3' -59.6 NC_003085.1 + 21358 0.71 0.206869
Target:  5'- gCGCGCCAuCcGCGUGGUGggCGUCUACg -3'
miRNA:   3'- -GCGUGGUcGcCGCACCGCa-GUAGGUG- -5'
11434 3' -59.6 NC_003085.1 + 22072 0.71 0.217924
Target:  5'- gGUACCAcGCGcGCGcGGUGUCGcguUCCACc -3'
miRNA:   3'- gCGUGGU-CGC-CGCaCCGCAGU---AGGUG- -5'
11434 3' -59.6 NC_003085.1 + 28506 0.71 0.223062
Target:  5'- gCGCGCCAuucagGCGGUGgacGCGUCAgggcgaaUCCGCg -3'
miRNA:   3'- -GCGUGGU-----CGCCGCac-CGCAGU-------AGGUG- -5'
11434 3' -59.6 NC_003085.1 + 28606 0.71 0.223639
Target:  5'- -aCGCCGGUGGUGUGGCGcUCG-CUGCu -3'
miRNA:   3'- gcGUGGUCGCCGCACCGC-AGUaGGUG- -5'
11434 3' -59.6 NC_003085.1 + 28612 0.71 0.229481
Target:  5'- gGCACCgcAGCGGCGagcucGGCGccggucgccUCAUCCAg -3'
miRNA:   3'- gCGUGG--UCGCCGCa----CCGC---------AGUAGGUg -5'
11434 3' -59.6 NC_003085.1 + 14916 0.7 0.235451
Target:  5'- gCGCACCGGCcgccagcGCGUGGCG-C-UCCAa -3'
miRNA:   3'- -GCGUGGUCGc------CGCACCGCaGuAGGUg -5'
11434 3' -59.6 NC_003085.1 + 29526 0.7 0.24155
Target:  5'- gCGuCACCAGCgucuuGGCGcgGGCGUCGUgCgGCa -3'
miRNA:   3'- -GC-GUGGUCG-----CCGCa-CCGCAGUA-GgUG- -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.