miRNA display CGI


Results 1 - 20 of 29 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
22306 3' -57.4 NC_005045.1 + 11272 0.66 0.529031
Target:  5'- uUGCUCUggcuguauuucugugCCUGGCGCAGcaUGCcauCCAGu -3'
miRNA:   3'- -ACGGGA---------------GGACCGCGUC--AUGuu-GGUCc -5'
22306 3' -57.4 NC_005045.1 + 8524 0.66 0.524753
Target:  5'- cGCUCagCC-GGCGCAGcucaUAC-GCCAGGu -3'
miRNA:   3'- aCGGGa-GGaCCGCGUC----AUGuUGGUCC- -5'
22306 3' -57.4 NC_005045.1 + 38900 0.66 0.514117
Target:  5'- gGgCCUCggGGCGCAgGUAC-GCCAGc -3'
miRNA:   3'- aCgGGAGgaCCGCGU-CAUGuUGGUCc -5'
22306 3' -57.4 NC_005045.1 + 27013 0.66 0.493117
Target:  5'- cGUCCUCCUGuCGCAggaGUACGucugcaugucgGCCAGc -3'
miRNA:   3'- aCGGGAGGACcGCGU---CAUGU-----------UGGUCc -5'
22306 3' -57.4 NC_005045.1 + 22420 0.66 0.492077
Target:  5'- aGUCCUCgacgUGGCcgcgaccGUAGUGCucGCCAGGg -3'
miRNA:   3'- aCGGGAGg---ACCG-------CGUCAUGu-UGGUCC- -5'
22306 3' -57.4 NC_005045.1 + 5733 0.67 0.452366
Target:  5'- aUGCCgaUCUagaGGCGCGGguaGCGGCCAGc -3'
miRNA:   3'- -ACGGgaGGA---CCGCGUCa--UGUUGGUCc -5'
22306 3' -57.4 NC_005045.1 + 41197 0.67 0.452366
Target:  5'- --aCCUCCUGGCGCuggguGUugGuCCuGGc -3'
miRNA:   3'- acgGGAGGACCGCGu----CAugUuGGuCC- -5'
22306 3' -57.4 NC_005045.1 + 41716 0.67 0.43269
Target:  5'- aGCCCgCC-GGUGCGGUguacACGACCucGGu -3'
miRNA:   3'- aCGGGaGGaCCGCGUCA----UGUUGGu-CC- -5'
22306 3' -57.4 NC_005045.1 + 4187 0.68 0.403205
Target:  5'- gGCauaUUCCUGGCacuacguGCAGUA-GGCCGGGg -3'
miRNA:   3'- aCGg--GAGGACCG-------CGUCAUgUUGGUCC- -5'
22306 3' -57.4 NC_005045.1 + 13000 0.68 0.393969
Target:  5'- aGCCCaaggcauUCUcGGCGCAGUACGGCgCGa- -3'
miRNA:   3'- aCGGG-------AGGaCCGCGUCAUGUUG-GUcc -5'
22306 3' -57.4 NC_005045.1 + 11108 0.68 0.385774
Target:  5'- gGUCCccaUCCUGcaccuguCGCAGUGgGGCCGGGa -3'
miRNA:   3'- aCGGG---AGGACc------GCGUCAUgUUGGUCC- -5'
22306 3' -57.4 NC_005045.1 + 27679 0.68 0.385774
Target:  5'- gGCCCUUCUGGauCAGaACcAUCAGGu -3'
miRNA:   3'- aCGGGAGGACCgcGUCaUGuUGGUCC- -5'
22306 3' -57.4 NC_005045.1 + 18868 0.68 0.367972
Target:  5'- gUGCCCgcuuggUCUGGUGCuuGGUGCGgcguACCAGc -3'
miRNA:   3'- -ACGGGa-----GGACCGCG--UCAUGU----UGGUCc -5'
22306 3' -57.4 NC_005045.1 + 40613 0.68 0.367972
Target:  5'- cUGCCUUCCagGGCGacaAGgcCGGCgAGGg -3'
miRNA:   3'- -ACGGGAGGa-CCGCg--UCauGUUGgUCC- -5'
22306 3' -57.4 NC_005045.1 + 32224 0.68 0.367096
Target:  5'- gGUgCUCUUGGCGCuggcgugGGUGCucuGCUGGGg -3'
miRNA:   3'- aCGgGAGGACCGCG-------UCAUGu--UGGUCC- -5'
22306 3' -57.4 NC_005045.1 + 22271 0.69 0.359284
Target:  5'- gUGCCCUUCUuGCGCuGUACGuggguguaCAGGu -3'
miRNA:   3'- -ACGGGAGGAcCGCGuCAUGUug------GUCC- -5'
22306 3' -57.4 NC_005045.1 + 12014 0.69 0.349895
Target:  5'- gGCUCUacgguggCgaGGUGCGGUACAaggGCCGGGu -3'
miRNA:   3'- aCGGGA-------GgaCCGCGUCAUGU---UGGUCC- -5'
22306 3' -57.4 NC_005045.1 + 5641 0.69 0.325988
Target:  5'- aUGCCCggcUCUUGGCcacGCGGcGCAucuCCGGGg -3'
miRNA:   3'- -ACGGG---AGGACCG---CGUCaUGUu--GGUCC- -5'
22306 3' -57.4 NC_005045.1 + 9760 0.7 0.318029
Target:  5'- aUGCCCUCCaGGC-CAcgGCAGCCuacgAGGg -3'
miRNA:   3'- -ACGGGAGGaCCGcGUcaUGUUGG----UCC- -5'
22306 3' -57.4 NC_005045.1 + 29297 0.7 0.310219
Target:  5'- aUGCCCUacaggcgCUGGCGCAGcaGCAgaagGCCgAGGa -3'
miRNA:   3'- -ACGGGAg------GACCGCGUCa-UGU----UGG-UCC- -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.