miRNA display CGI


Results 1 - 18 of 18 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
18690 5' -57.3 NC_004682.1 + 23982 0.66 0.609347
Target:  5'- cGGCAGCCGCGUccuggggguguGGcCGGUgcccGUCA-GGc -3'
miRNA:   3'- -CCGUUGGCGCA-----------CCaGCCG----CAGUaCCc -5'
18690 5' -57.3 NC_004682.1 + 16668 0.66 0.609347
Target:  5'- cGGCAugCGCucgGG-CGGCagcgGUgAUGGGc -3'
miRNA:   3'- -CCGUugGCGca-CCaGCCG----CAgUACCC- -5'
18690 5' -57.3 NC_004682.1 + 658 0.66 0.609347
Target:  5'- aGGCGACCGa--GGUCGaccacaucCGUCGUGGu -3'
miRNA:   3'- -CCGUUGGCgcaCCAGCc-------GCAGUACCc -5'
18690 5' -57.3 NC_004682.1 + 11794 0.66 0.598621
Target:  5'- --gGACCG-GUGccgucUCGGCGUCGUGGa -3'
miRNA:   3'- ccgUUGGCgCACc----AGCCGCAGUACCc -5'
18690 5' -57.3 NC_004682.1 + 5667 0.67 0.566639
Target:  5'- gGGCGAuCCGCucuucgauGUGGUUGGCG-CGUccgguguucGGGu -3'
miRNA:   3'- -CCGUU-GGCG--------CACCAGCCGCaGUA---------CCC- -5'
18690 5' -57.3 NC_004682.1 + 16254 0.67 0.566638
Target:  5'- aGCGACCGC-UGGUCgcGGUGUCAc--- -3'
miRNA:   3'- cCGUUGGCGcACCAG--CCGCAGUaccc -5'
18690 5' -57.3 NC_004682.1 + 32158 0.67 0.556069
Target:  5'- cGCAACCGUGUc-UCGGauCGUCcgGGGc -3'
miRNA:   3'- cCGUUGGCGCAccAGCC--GCAGuaCCC- -5'
18690 5' -57.3 NC_004682.1 + 3194 0.67 0.555014
Target:  5'- gGGCAACCGCGUccacaacGGcaucaccuacgUCGGCGgcgCGgcacaGGGc -3'
miRNA:   3'- -CCGUUGGCGCA-------CC-----------AGCCGCa--GUa----CCC- -5'
18690 5' -57.3 NC_004682.1 + 20572 0.67 0.530951
Target:  5'- cGGCGACaugguccuucgggGCGUGGUCgcuGGCGagCGUGGu -3'
miRNA:   3'- -CCGUUGg------------CGCACCAG---CCGCa-GUACCc -5'
18690 5' -57.3 NC_004682.1 + 3179 0.68 0.504221
Target:  5'- cGUAACCgGCGaUGGUCGcG-GUgGUGGGg -3'
miRNA:   3'- cCGUUGG-CGC-ACCAGC-CgCAgUACCC- -5'
18690 5' -57.3 NC_004682.1 + 30157 0.68 0.494095
Target:  5'- cGGUaccGACCcCGaGGUCGGaggacgGUCGUGGGg -3'
miRNA:   3'- -CCG---UUGGcGCaCCAGCCg-----CAGUACCC- -5'
18690 5' -57.3 NC_004682.1 + 17763 0.68 0.484062
Target:  5'- uGCAGCgC-CGUGGUCaGCGUCGUGc- -3'
miRNA:   3'- cCGUUG-GcGCACCAGcCGCAGUACcc -5'
18690 5' -57.3 NC_004682.1 + 9512 0.69 0.464298
Target:  5'- gGGCAGCUGCGUcGGUgacCGaGCGaagcUCcgGGGu -3'
miRNA:   3'- -CCGUUGGCGCA-CCA---GC-CGC----AGuaCCC- -5'
18690 5' -57.3 NC_004682.1 + 41513 0.69 0.41683
Target:  5'- aGCGcCUGCGUGGUCGGCcugcaccacGUCAccGGa -3'
miRNA:   3'- cCGUuGGCGCACCAGCCG---------CAGUacCC- -5'
18690 5' -57.3 NC_004682.1 + 12892 0.72 0.308395
Target:  5'- gGGCuucugAGCCGCucgcUGG-CGGCGUCggGGGg -3'
miRNA:   3'- -CCG-----UUGGCGc---ACCaGCCGCAGuaCCC- -5'
18690 5' -57.3 NC_004682.1 + 9511 0.72 0.301007
Target:  5'- aGCGGCUGC-UGuUCGGCGUCAaGGGc -3'
miRNA:   3'- cCGUUGGCGcACcAGCCGCAGUaCCC- -5'
18690 5' -57.3 NC_004682.1 + 24341 0.73 0.272145
Target:  5'- gGGCAgagcuggGCUGCGUGGUcgaCGGCGUCAa--- -3'
miRNA:   3'- -CCGU-------UGGCGCACCA---GCCGCAGUaccc -5'
18690 5' -57.3 NC_004682.1 + 12346 1.11 0.000497
Target:  5'- uGGCAACCGCGUGGUCGGCGUCAUGGGc -3'
miRNA:   3'- -CCGUUGGCGCACCAGCCGCAGUACCC- -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.