miRNA display CGI


Results 1 - 20 of 57 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
1672 3' -56 NC_001347.2 + 229510 0.66 0.973058
Target:  5'- cCGGCGguguuuUGGgugugucggggcGCGGCGGguggGUGUGUGCCGg -3'
miRNA:   3'- -GCUGU------ACC------------UGCCGCUg---CACGCAUGGC- -5'
1672 3' -56 NC_001347.2 + 40515 0.66 0.973058
Target:  5'- gGGCuucgGGACGGUGuuuCGgcGCGcUGCCGg -3'
miRNA:   3'- gCUGua--CCUGCCGCu--GCa-CGC-AUGGC- -5'
1672 3' -56 NC_001347.2 + 1634 0.66 0.972798
Target:  5'- gGGCGUGGgcaccccGCGcGCGACGcUGC-UGCCu -3'
miRNA:   3'- gCUGUACC-------UGC-CGCUGC-ACGcAUGGc -5'
1672 3' -56 NC_001347.2 + 76736 0.66 0.967503
Target:  5'- aGGCGcUGGAUGGUGGucuccuCGUGCGgcUCGc -3'
miRNA:   3'- gCUGU-ACCUGCCGCU------GCACGCauGGC- -5'
1672 3' -56 NC_001347.2 + 171000 0.66 0.967503
Target:  5'- uGACGccaguUGGGCGGCcAUGUGCaaguggaugaGUACCu -3'
miRNA:   3'- gCUGU-----ACCUGCCGcUGCACG----------CAUGGc -5'
1672 3' -56 NC_001347.2 + 8025 0.66 0.967503
Target:  5'- gGAaGUGGACGGCGAuaaCGccacGCGUcGCCa -3'
miRNA:   3'- gCUgUACCUGCCGCU---GCa---CGCA-UGGc -5'
1672 3' -56 NC_001347.2 + 213 0.66 0.967503
Target:  5'- uGGCggGGuguguCGGCGGUGUGCGcgGCCu -3'
miRNA:   3'- gCUGuaCCu----GCCGCUGCACGCa-UGGc -5'
1672 3' -56 NC_001347.2 + 229692 0.66 0.967503
Target:  5'- uGGCggGGuguguCGGCGGUGUGCGcgGCCu -3'
miRNA:   3'- gCUGuaCCu----GCCGCUGCACGCa-UGGc -5'
1672 3' -56 NC_001347.2 + 153623 0.66 0.96444
Target:  5'- gGACGUGGugGGgGugcagGCGU-CCGa -3'
miRNA:   3'- gCUGUACCugCCgCugca-CGCAuGGC- -5'
1672 3' -56 NC_001347.2 + 2204 0.66 0.961181
Target:  5'- uCGACAgcgauggcgGGucCGGCGGCGUcggggacCGUGCCGc -3'
miRNA:   3'- -GCUGUa--------CCu-GCCGCUGCAc------GCAUGGC- -5'
1672 3' -56 NC_001347.2 + 39515 0.66 0.961181
Target:  5'- gGGCGgggGGcGCGGCGACaUGcCGUugCGc -3'
miRNA:   3'- gCUGUa--CC-UGCCGCUGcAC-GCAugGC- -5'
1672 3' -56 NC_001347.2 + 228361 0.66 0.961181
Target:  5'- gCGAUgcgGUGGAugUGGCGGgGUGCGgcgguuuCCGa -3'
miRNA:   3'- -GCUG---UACCU--GCCGCUgCACGCau-----GGC- -5'
1672 3' -56 NC_001347.2 + 170063 0.66 0.957721
Target:  5'- aGugGUGG-CGGCGuCGUcaguugGCGUcCCGa -3'
miRNA:   3'- gCugUACCuGCCGCuGCA------CGCAuGGC- -5'
1672 3' -56 NC_001347.2 + 184378 0.67 0.954056
Target:  5'- -cGCGUGuGCGGgGACGacggGCGUugCGg -3'
miRNA:   3'- gcUGUACcUGCCgCUGCa---CGCAugGC- -5'
1672 3' -56 NC_001347.2 + 153245 0.67 0.954056
Target:  5'- -cGCGUcGGcCGGCGACG-GCGguucGCCGu -3'
miRNA:   3'- gcUGUA-CCuGCCGCUGCaCGCa---UGGC- -5'
1672 3' -56 NC_001347.2 + 78361 0.67 0.954056
Target:  5'- cCGGCGUGGugGGaccCGGCG-GC--GCCGu -3'
miRNA:   3'- -GCUGUACCugCC---GCUGCaCGcaUGGC- -5'
1672 3' -56 NC_001347.2 + 7133 0.67 0.953678
Target:  5'- aCGGCGUGGACGGUcuccgguGACGUuCGcaACUGa -3'
miRNA:   3'- -GCUGUACCUGCCG-------CUGCAcGCa-UGGC- -5'
1672 3' -56 NC_001347.2 + 155614 0.67 0.950181
Target:  5'- aCGACGaGGACGGUgaaGACGgacacGCGcUACCc -3'
miRNA:   3'- -GCUGUaCCUGCCG---CUGCa----CGC-AUGGc -5'
1672 3' -56 NC_001347.2 + 172366 0.67 0.946095
Target:  5'- aCGACGUGGAaaUGGCGGcCGUGa--ACCu -3'
miRNA:   3'- -GCUGUACCU--GCCGCU-GCACgcaUGGc -5'
1672 3' -56 NC_001347.2 + 108783 0.67 0.946095
Target:  5'- gGACGUGGcacuGCGGC-ACGUGgUGUGCgCGc -3'
miRNA:   3'- gCUGUACC----UGCCGcUGCAC-GCAUG-GC- -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.