miRNA display CGI


Results 1 - 20 of 35 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
22897 3' -59.2 NC_005137.2 + 91194 0.66 0.767641
Target:  5'- gGCgCGGCGU-UUGGU---UGCACGCGu -3'
miRNA:   3'- gCG-GCCGCAcAGCCGcuuACGUGCGC- -5'
22897 3' -59.2 NC_005137.2 + 34601 0.66 0.777734
Target:  5'- uCGCCGcGCGgguagcgGUCGGCGcggcuccauauuuuuAUGUugGCc -3'
miRNA:   3'- -GCGGC-CGCa------CAGCCGCu--------------UACGugCGc -5'
22897 3' -59.2 NC_005137.2 + 126678 0.66 0.782273
Target:  5'- gCGCuCGGUGUccgggcauguuaaUCGGCGugcauUGCACGCa -3'
miRNA:   3'- -GCG-GCCGCAc------------AGCCGCuu---ACGUGCGc -5'
22897 3' -59.2 NC_005137.2 + 26564 0.66 0.785881
Target:  5'- gCGCugCGGCGUGUCGacuGCcaaGAUGUacACGCGg -3'
miRNA:   3'- -GCG--GCCGCACAGC---CGc--UUACG--UGCGC- -5'
22897 3' -59.2 NC_005137.2 + 124967 0.66 0.785881
Target:  5'- gCGCCGGUGaUGg-GGCGc-UGCGCuGCGu -3'
miRNA:   3'- -GCGGCCGC-ACagCCGCuuACGUG-CGC- -5'
22897 3' -59.2 NC_005137.2 + 114255 0.66 0.776823
Target:  5'- aGCCGGac--UUGGCGggUcGCACGgGg -3'
miRNA:   3'- gCGGCCgcacAGCCGCuuA-CGUGCgC- -5'
22897 3' -59.2 NC_005137.2 + 46439 0.66 0.77591
Target:  5'- cCGCUGGCGcacaugcUGU-GGCacAUGCACGCc -3'
miRNA:   3'- -GCGGCCGC-------ACAgCCGcuUACGUGCGc -5'
22897 3' -59.2 NC_005137.2 + 32901 0.66 0.747992
Target:  5'- aGCCGGCGg--CGGUGAcaaaacucgcaacAUGCagACGUGc -3'
miRNA:   3'- gCGGCCGCacaGCCGCU-------------UACG--UGCGC- -5'
22897 3' -59.2 NC_005137.2 + 125757 0.66 0.767641
Target:  5'- gCGCCGcGCGUuUCGaGCG---GCGCGUGg -3'
miRNA:   3'- -GCGGC-CGCAcAGC-CGCuuaCGUGCGC- -5'
22897 3' -59.2 NC_005137.2 + 53100 0.66 0.767641
Target:  5'- gGUgGGUGUGUUuGCGGuUGCACGaCGc -3'
miRNA:   3'- gCGgCCGCACAGcCGCUuACGUGC-GC- -5'
22897 3' -59.2 NC_005137.2 + 129507 0.66 0.758343
Target:  5'- gCGUCGGCGccgcgCGGCGgAAUGUAC-CGg -3'
miRNA:   3'- -GCGGCCGCaca--GCCGC-UUACGUGcGC- -5'
22897 3' -59.2 NC_005137.2 + 80395 0.66 0.758343
Target:  5'- uGCCGGCGUGUauGa----GUACGCGu -3'
miRNA:   3'- gCGGCCGCACAgcCgcuuaCGUGCGC- -5'
22897 3' -59.2 NC_005137.2 + 70194 0.67 0.700611
Target:  5'- uGuuGGUGgaggcGUCGGUGAagGUGUugGUGa -3'
miRNA:   3'- gCggCCGCa----CAGCCGCU--UACGugCGC- -5'
22897 3' -59.2 NC_005137.2 + 10935 0.67 0.694698
Target:  5'- cCGCCGGCGaguucaccaucacgUcaauaggcacuucgGUCGcGUGAAUaGCGCGCGa -3'
miRNA:   3'- -GCGGCCGC--------------A--------------CAGC-CGCUUA-CGUGCGC- -5'
22897 3' -59.2 NC_005137.2 + 117580 0.68 0.640881
Target:  5'- cCGCCGGUGcGgcugacgGGCGAcGUGUACGCu -3'
miRNA:   3'- -GCGGCCGCaCag-----CCGCU-UACGUGCGc -5'
22897 3' -59.2 NC_005137.2 + 2692 0.68 0.670882
Target:  5'- uGCCGGUGg--CGGCGAAUuaaGCACa-- -3'
miRNA:   3'- gCGGCCGCacaGCCGCUUA---CGUGcgc -5'
22897 3' -59.2 NC_005137.2 + 20195 0.68 0.650898
Target:  5'- gCGUCGGCGgg-CGGCGucgauUGCgaaaGCGCGu -3'
miRNA:   3'- -GCGGCCGCacaGCCGCuu---ACG----UGCGC- -5'
22897 3' -59.2 NC_005137.2 + 129003 0.68 0.630856
Target:  5'- gCGCCGcaGCGUGcaCGaGCu-GUGCACGCGg -3'
miRNA:   3'- -GCGGC--CGCACa-GC-CGcuUACGUGCGC- -5'
22897 3' -59.2 NC_005137.2 + 95575 0.68 0.630856
Target:  5'- aCGgCaGCGUGUUGGCGuuguaguuaauGAUGgGCGCGc -3'
miRNA:   3'- -GCgGcCGCACAGCCGC-----------UUACgUGCGC- -5'
22897 3' -59.2 NC_005137.2 + 20564 0.68 0.620833
Target:  5'- gCGCCGGCcg--CGGUG--UGCACGCu -3'
miRNA:   3'- -GCGGCCGcacaGCCGCuuACGUGCGc -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.