miRNA display CGI


Results 1 - 20 of 26 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
28154 3' -59.4 NC_005887.1 + 42022 0.66 0.445232
Target:  5'- -cGCCGCGcacgcaccacGCGAGcaCGCCGGGcAGCu -3'
miRNA:   3'- guCGGUGC----------CGCUCa-GCGGCCUaUCGc -5'
28154 3' -59.4 NC_005887.1 + 20798 0.66 0.426118
Target:  5'- uGGUCACGGaaaaaUGCUGGAUGGCGu -3'
miRNA:   3'- gUCGGUGCCgcucaGCGGCCUAUCGC- -5'
28154 3' -59.4 NC_005887.1 + 6989 0.66 0.426118
Target:  5'- gCGGcCCAUGcCGAGUUGCgGGAUucgcucGGCGg -3'
miRNA:   3'- -GUC-GGUGCcGCUCAGCGgCCUA------UCGC- -5'
28154 3' -59.4 NC_005887.1 + 37061 0.66 0.426118
Target:  5'- aCGGCC-UGcGCGuGcUCGCCGGcgAGCu -3'
miRNA:   3'- -GUCGGuGC-CGCuC-AGCGGCCuaUCGc -5'
28154 3' -59.4 NC_005887.1 + 12079 0.66 0.416745
Target:  5'- gAGCgGCGuGCGuG-CGCCGGAUGucuGCa -3'
miRNA:   3'- gUCGgUGC-CGCuCaGCGGCCUAU---CGc -5'
28154 3' -59.4 NC_005887.1 + 37106 0.66 0.416745
Target:  5'- aCAGCCuCGGCGAucgcgcggccGUCGCcCGGAaucuucUGGUu -3'
miRNA:   3'- -GUCGGuGCCGCU----------CAGCG-GCCU------AUCGc -5'
28154 3' -59.4 NC_005887.1 + 30275 0.66 0.4075
Target:  5'- aGGCCGCGacGCGGcGUgGCUGGccGGCGa -3'
miRNA:   3'- gUCGGUGC--CGCU-CAgCGGCCuaUCGC- -5'
28154 3' -59.4 NC_005887.1 + 15259 0.66 0.4075
Target:  5'- gCAGCCgcagugcugcGCGGCGAGcgucCGCCGGcgAaCGa -3'
miRNA:   3'- -GUCGG----------UGCCGCUCa---GCGGCCuaUcGC- -5'
28154 3' -59.4 NC_005887.1 + 7440 0.67 0.398384
Target:  5'- gAGCUgaacGCGGCGuuGUCGUCGGucugcAGCGc -3'
miRNA:   3'- gUCGG----UGCCGCu-CAGCGGCCua---UCGC- -5'
28154 3' -59.4 NC_005887.1 + 25492 0.67 0.3894
Target:  5'- gCAGCgGCGGCucGgacgauggcgCGgCGGGUGGCGg -3'
miRNA:   3'- -GUCGgUGCCGcuCa---------GCgGCCUAUCGC- -5'
28154 3' -59.4 NC_005887.1 + 12903 0.67 0.371835
Target:  5'- uCGG-CACGGCGAGccagcaCGCCGGuuucgcgAGCGc -3'
miRNA:   3'- -GUCgGUGCCGCUCa-----GCGGCCua-----UCGC- -5'
28154 3' -59.4 NC_005887.1 + 2634 0.67 0.370972
Target:  5'- uGGCCGaGGCGAGUCaguaccuGCUGGugGGCGc -3'
miRNA:   3'- gUCGGUgCCGCUCAG-------CGGCCuaUCGC- -5'
28154 3' -59.4 NC_005887.1 + 12651 0.67 0.363257
Target:  5'- -cGUCGCGGcCGGGUCGgCGGAcaccauGCGc -3'
miRNA:   3'- guCGGUGCC-GCUCAGCgGCCUau----CGC- -5'
28154 3' -59.4 NC_005887.1 + 10636 0.67 0.354818
Target:  5'- gAGCCugGGCGGcGUCGuuGGGc---- -3'
miRNA:   3'- gUCGGugCCGCU-CAGCggCCUaucgc -5'
28154 3' -59.4 NC_005887.1 + 36974 0.68 0.322458
Target:  5'- uCGGCgucgCGCGGguCGAGcUCGCCGGcgAGCa -3'
miRNA:   3'- -GUCG----GUGCC--GCUC-AGCGGCCuaUCGc -5'
28154 3' -59.4 NC_005887.1 + 7478 0.68 0.31472
Target:  5'- aGGCgGCGGCGGGUgCGaCCG--UGGCGa -3'
miRNA:   3'- gUCGgUGCCGCUCA-GC-GGCcuAUCGC- -5'
28154 3' -59.4 NC_005887.1 + 11559 0.68 0.307124
Target:  5'- gCAGCgCGCGGCG-GUCGC-GGAaucgGGCu -3'
miRNA:   3'- -GUCG-GUGCCGCuCAGCGgCCUa---UCGc -5'
28154 3' -59.4 NC_005887.1 + 17271 0.69 0.299668
Target:  5'- -uGCCG-GGCGAGaCGUCGGGcGGCGc -3'
miRNA:   3'- guCGGUgCCGCUCaGCGGCCUaUCGC- -5'
28154 3' -59.4 NC_005887.1 + 3038 0.69 0.278144
Target:  5'- aAGCgACGGacgugGAGUCGCCGGcgAGg- -3'
miRNA:   3'- gUCGgUGCCg----CUCAGCGGCCuaUCgc -5'
28154 3' -59.4 NC_005887.1 + 40043 0.69 0.271248
Target:  5'- gGGCCACGGCGucUCGCCcuuguGCGa -3'
miRNA:   3'- gUCGGUGCCGCucAGCGGccuauCGC- -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.