miRNA display CGI


Results 1 - 20 of 60 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
22879 5' -56.1 NC_005137.2 + 43960 0.66 0.90512
Target:  5'- cGgGC-GCGUCCACCGccaugUUGUAcuCGCc -3'
miRNA:   3'- aCgCGcCGCAGGUGGCua---AGCAU--GCG- -5'
22879 5' -56.1 NC_005137.2 + 85333 0.68 0.779166
Target:  5'- cGCGuUGGCG-CCGCCGcccaCGUugGUg -3'
miRNA:   3'- aCGC-GCCGCaGGUGGCuaa-GCAugCG- -5'
22879 5' -56.1 NC_005137.2 + 15272 0.69 0.760394
Target:  5'- uUGCGUugcaccuuGGCGUCCACUaGUauaUCGU-CGCa -3'
miRNA:   3'- -ACGCG--------CCGCAGGUGGcUA---AGCAuGCG- -5'
22879 5' -56.1 NC_005137.2 + 73559 1.12 0.00163
Target:  5'- uUGCGCGGCGUCCACCGAUUCGUACGCg -3'
miRNA:   3'- -ACGCGCCGCAGGUGGCUAAGCAUGCG- -5'
22879 5' -56.1 NC_005137.2 + 118090 0.66 0.878467
Target:  5'- aGUGguagaGGCGUuuGCCGAUUa-UGCGCu -3'
miRNA:   3'- aCGCg----CCGCAggUGGCUAAgcAUGCG- -5'
22879 5' -56.1 NC_005137.2 + 51398 0.66 0.878467
Target:  5'- aGCGCGGCcgcUCCACUaauuGAUaugCG-ACGCu -3'
miRNA:   3'- aCGCGCCGc--AGGUGG----CUAa--GCaUGCG- -5'
22879 5' -56.1 NC_005137.2 + 54418 0.67 0.871247
Target:  5'- --gGCGGCGUCCAacaCGAgcaugugaUCGgGCGUg -3'
miRNA:   3'- acgCGCCGCAGGUg--GCUa-------AGCaUGCG- -5'
22879 5' -56.1 NC_005137.2 + 69075 0.67 0.863812
Target:  5'- aGCGUGGCugaGUCCAUCGAcUCGg---- -3'
miRNA:   3'- aCGCGCCG---CAGGUGGCUaAGCaugcg -5'
22879 5' -56.1 NC_005137.2 + 100000 0.67 0.840287
Target:  5'- cGUaGCGGCGcCgACCag--CGUGCGCg -3'
miRNA:   3'- aCG-CGCCGCaGgUGGcuaaGCAUGCG- -5'
22879 5' -56.1 NC_005137.2 + 99377 0.68 0.788361
Target:  5'- cGCGC-GCGUgCACUGAc-CGUugGCc -3'
miRNA:   3'- aCGCGcCGCAgGUGGCUaaGCAugCG- -5'
22879 5' -56.1 NC_005137.2 + 6011 0.67 0.840287
Target:  5'- gGUGCGGCaUCCcgcCCGAUUUccaACGCa -3'
miRNA:   3'- aCGCGCCGcAGGu--GGCUAAGca-UGCG- -5'
22879 5' -56.1 NC_005137.2 + 12954 0.67 0.848326
Target:  5'- cGCuGCGGCGcggCCACaaaCGGUUgGcACGCa -3'
miRNA:   3'- aCG-CGCCGCa--GGUG---GCUAAgCaUGCG- -5'
22879 5' -56.1 NC_005137.2 + 83978 0.66 0.898799
Target:  5'- gGUGCaGGCGUCCAUgaCGGagCGacagauUGCGCg -3'
miRNA:   3'- aCGCG-CCGCAGGUG--GCUaaGC------AUGCG- -5'
22879 5' -56.1 NC_005137.2 + 18066 0.67 0.832059
Target:  5'- gGCGUGGUGUCCaACCaGAcgcCGUuuauguacACGCa -3'
miRNA:   3'- aCGCGCCGCAGG-UGG-CUaa-GCA--------UGCG- -5'
22879 5' -56.1 NC_005137.2 + 76274 0.66 0.898799
Target:  5'- uUGUGC-GCG-CCAaCGAUUCGUACa- -3'
miRNA:   3'- -ACGCGcCGCaGGUgGCUAAGCAUGcg -5'
22879 5' -56.1 NC_005137.2 + 124015 0.67 0.85617
Target:  5'- gUGCcCGGCGaCCGCuCGuccgUGUGCGCc -3'
miRNA:   3'- -ACGcGCCGCaGGUG-GCuaa-GCAUGCG- -5'
22879 5' -56.1 NC_005137.2 + 1735 0.68 0.82365
Target:  5'- cGCGuCGGCaUCUAUCGcgUUGUGUGCg -3'
miRNA:   3'- aCGC-GCCGcAGGUGGCuaAGCAUGCG- -5'
22879 5' -56.1 NC_005137.2 + 51331 0.68 0.779166
Target:  5'- aGCGgGGuCGUCCGCCGccgCGccUGCa -3'
miRNA:   3'- aCGCgCC-GCAGGUGGCuaaGCauGCG- -5'
22879 5' -56.1 NC_005137.2 + 91194 0.66 0.898799
Target:  5'- gGCGCGGCGUUUgguuGCaCGcg-UGUugGCc -3'
miRNA:   3'- aCGCGCCGCAGG----UG-GCuaaGCAugCG- -5'
22879 5' -56.1 NC_005137.2 + 99197 0.67 0.871247
Target:  5'- -aCGCGGCauugggCCGCCGcaUCGcUGCGCc -3'
miRNA:   3'- acGCGCCGca----GGUGGCuaAGC-AUGCG- -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.