miRNA display CGI


Results 1 - 20 of 21 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
25206 3' -52.9 NC_005336.1 + 16354 0.65 0.974173
Target:  5'- gCGGgGUGGCGc-GUcagcagcaggaacaUCACGAUGugCGc -3'
miRNA:   3'- -GUCgCACCGCauCA--------------AGUGCUACugGU- -5'
25206 3' -52.9 NC_005336.1 + 74666 0.66 0.972232
Target:  5'- gCAGCGUGGCGgccagGGUggacaGCGGcgGGuCCAc -3'
miRNA:   3'- -GUCGCACCGCa----UCAag---UGCUa-CU-GGU- -5'
25206 3' -52.9 NC_005336.1 + 13536 0.66 0.969278
Target:  5'- cCAGCGgcaccGGCGUGGg-CACGGUGuACa- -3'
miRNA:   3'- -GUCGCa----CCGCAUCaaGUGCUAC-UGgu -5'
25206 3' -52.9 NC_005336.1 + 44161 0.66 0.968661
Target:  5'- cCGGCGgccacgggucugGGCGUGG-UCGCGGacaUGAUCGc -3'
miRNA:   3'- -GUCGCa-----------CCGCAUCaAGUGCU---ACUGGU- -5'
25206 3' -52.9 NC_005336.1 + 71939 0.66 0.963062
Target:  5'- gCGGCGcUGGCGUGGcggCACGugcucguggagcgcGACCAc -3'
miRNA:   3'- -GUCGC-ACCGCAUCaa-GUGCua------------CUGGU- -5'
25206 3' -52.9 NC_005336.1 + 76956 0.67 0.951129
Target:  5'- -cGCGcGGCG-AGUcuucguggCGCGGUGGCCGa -3'
miRNA:   3'- guCGCaCCGCaUCAa-------GUGCUACUGGU- -5'
25206 3' -52.9 NC_005336.1 + 36834 0.67 0.951129
Target:  5'- gGGCGUGGUcagcacGUGgauGUUCACGGUGcagguGCCGc -3'
miRNA:   3'- gUCGCACCG------CAU---CAAGUGCUAC-----UGGU- -5'
25206 3' -52.9 NC_005336.1 + 100246 0.67 0.946786
Target:  5'- aCGGCacgGUGcGCGUGGUggACG-UGGCCAa -3'
miRNA:   3'- -GUCG---CAC-CGCAUCAagUGCuACUGGU- -5'
25206 3' -52.9 NC_005336.1 + 83874 0.67 0.946786
Target:  5'- --uCGUGGCGUAGUcCGCGAUcaGCCc -3'
miRNA:   3'- gucGCACCGCAUCAaGUGCUAc-UGGu -5'
25206 3' -52.9 NC_005336.1 + 109696 0.67 0.942196
Target:  5'- cCAGCcaGGCGUAGguggUCGCGAaGAgCGu -3'
miRNA:   3'- -GUCGcaCCGCAUCa---AGUGCUaCUgGU- -5'
25206 3' -52.9 NC_005336.1 + 96303 0.67 0.937357
Target:  5'- gGGCGcGGCGgagcgAGUgcgCACGAUaccgcGGCCAg -3'
miRNA:   3'- gUCGCaCCGCa----UCAa--GUGCUA-----CUGGU- -5'
25206 3' -52.9 NC_005336.1 + 62576 0.68 0.926923
Target:  5'- uCAGCGUGGCGUcgucagcgucggGGUucugcuccauggUCGCGAaGAgCAg -3'
miRNA:   3'- -GUCGCACCGCA------------UCA------------AGUGCUaCUgGU- -5'
25206 3' -52.9 NC_005336.1 + 9030 0.68 0.926923
Target:  5'- uGGCGUGGCGUuGgcggCGCGAUcGAaucCCAc -3'
miRNA:   3'- gUCGCACCGCAuCaa--GUGCUA-CU---GGU- -5'
25206 3' -52.9 NC_005336.1 + 58158 0.68 0.915478
Target:  5'- gCGGCGacGGCGcGGc-CGCGAUGGCCGc -3'
miRNA:   3'- -GUCGCa-CCGCaUCaaGUGCUACUGGU- -5'
25206 3' -52.9 NC_005336.1 + 38788 0.69 0.867653
Target:  5'- gCAGCGcuUGGcCGUGGUcuUCACGuacgaGACCAg -3'
miRNA:   3'- -GUCGC--ACC-GCAUCA--AGUGCua---CUGGU- -5'
25206 3' -52.9 NC_005336.1 + 70849 0.7 0.843703
Target:  5'- -cGCGUccaGGCGUAGUUCGCGua-GCCc -3'
miRNA:   3'- guCGCA---CCGCAUCAAGUGCuacUGGu -5'
25206 3' -52.9 NC_005336.1 + 19304 0.7 0.835304
Target:  5'- -cGCGUGGUGUAcagCGCGGaGGCCAu -3'
miRNA:   3'- guCGCACCGCAUcaaGUGCUaCUGGU- -5'
25206 3' -52.9 NC_005336.1 + 69662 0.71 0.817927
Target:  5'- -cGCGUcGCGUAGU---CGAUGACCAg -3'
miRNA:   3'- guCGCAcCGCAUCAaguGCUACUGGU- -5'
25206 3' -52.9 NC_005336.1 + 30890 0.72 0.742024
Target:  5'- cCAGCGUGGCGUAGUUgccccagucgagCGCGcUGAaCUg -3'
miRNA:   3'- -GUCGCACCGCAUCAA------------GUGCuACU-GGu -5'
25206 3' -52.9 NC_005336.1 + 118268 0.72 0.731975
Target:  5'- gCGGCGaUGuCGUGGUUCACGccaAUGACCu -3'
miRNA:   3'- -GUCGC-ACcGCAUCAAGUGC---UACUGGu -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.