miRNA display CGI


Results 1 - 20 of 25 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
13301 3' -61.7 NC_003409.1 + 81508 0.66 0.655815
Target:  5'- --aGGCGCGCCGCAcGUacUGcGCCuuGCCGu -3'
miRNA:   3'- ccaCCGCGCGGUGU-CA--GCuCGG--CGGU- -5'
13301 3' -61.7 NC_003409.1 + 30988 0.66 0.655815
Target:  5'- gGGUGGUGCGCCAacuaccgCGAGUC-CUg -3'
miRNA:   3'- -CCACCGCGCGGUguca---GCUCGGcGGu -5'
13301 3' -61.7 NC_003409.1 + 104869 0.66 0.645916
Target:  5'- cGGUGGCcaccaGCCAcCAGaCGAGCaccaGCCc -3'
miRNA:   3'- -CCACCGcg---CGGU-GUCaGCUCGg---CGGu -5'
13301 3' -61.7 NC_003409.1 + 63087 0.66 0.636009
Target:  5'- cGGUGGUGUGCC-UGGUgGAGCaCGaagaCAu -3'
miRNA:   3'- -CCACCGCGCGGuGUCAgCUCG-GCg---GU- -5'
13301 3' -61.7 NC_003409.1 + 40967 0.66 0.606294
Target:  5'- cGUGGCuuGCauUAGgCGAGCCGCCGc -3'
miRNA:   3'- cCACCGcgCGguGUCaGCUCGGCGGU- -5'
13301 3' -61.7 NC_003409.1 + 40570 0.67 0.596416
Target:  5'- --cGGCGCGCCugucgACAGgCGAGCgCGUg- -3'
miRNA:   3'- ccaCCGCGCGG-----UGUCaGCUCG-GCGgu -5'
13301 3' -61.7 NC_003409.1 + 101587 0.67 0.596416
Target:  5'- gGGUGGCGCGCCGguG-CGGuguuCUGCg- -3'
miRNA:   3'- -CCACCGCGCGGUguCaGCUc---GGCGgu -5'
13301 3' -61.7 NC_003409.1 + 131528 0.67 0.586563
Target:  5'- --gGGUGUGCCACgcagcgguAGUCccuGGCCGCCc -3'
miRNA:   3'- ccaCCGCGCGGUG--------UCAGc--UCGGCGGu -5'
13301 3' -61.7 NC_003409.1 + 26935 0.67 0.566956
Target:  5'- cGG-GGCGCGCCguguuuuggacaACuuGUCcgGAGCUGCCu -3'
miRNA:   3'- -CCaCCGCGCGG------------UGu-CAG--CUCGGCGGu -5'
13301 3' -61.7 NC_003409.1 + 109679 0.68 0.509333
Target:  5'- cGG-GGCGCGCgCGCauagccgucuuGGUgUGGGCCGUCAc -3'
miRNA:   3'- -CCaCCGCGCG-GUG-----------UCA-GCUCGGCGGU- -5'
13301 3' -61.7 NC_003409.1 + 67328 0.68 0.509333
Target:  5'- gGGUGGCGUggagGCCAggaugcgGGUUGGGUCGCUg -3'
miRNA:   3'- -CCACCGCG----CGGUg------UCAGCUCGGCGGu -5'
13301 3' -61.7 NC_003409.1 + 24215 0.68 0.49066
Target:  5'- uGG-GGCGCGCCAgCGGUgggcgGGGCC-CCAu -3'
miRNA:   3'- -CCaCCGCGCGGU-GUCAg----CUCGGcGGU- -5'
13301 3' -61.7 NC_003409.1 + 33988 0.69 0.472311
Target:  5'- aGGguacgGGCGCGCCAgGGacagCGc-CCGCCAu -3'
miRNA:   3'- -CCa----CCGCGCGGUgUCa---GCucGGCGGU- -5'
13301 3' -61.7 NC_003409.1 + 78522 0.69 0.454314
Target:  5'- gGGcUGGgGuCGUCugGGUUuuaGAGCCGCCGc -3'
miRNA:   3'- -CC-ACCgC-GCGGugUCAG---CUCGGCGGU- -5'
13301 3' -61.7 NC_003409.1 + 25007 0.69 0.445457
Target:  5'- gGGUGGCGCGCCGggaucccccucCGGggaGGGUggcgCGCCGg -3'
miRNA:   3'- -CCACCGCGCGGU-----------GUCag-CUCG----GCGGU- -5'
13301 3' -61.7 NC_003409.1 + 24947 0.69 0.445457
Target:  5'- gGGUGGCGCGCCGggaucccccucCGGggaGGGUggcgCGCCGg -3'
miRNA:   3'- -CCACCGCGCGGU-----------GUCag-CUCG----GCGGU- -5'
13301 3' -61.7 NC_003409.1 + 24827 0.69 0.445457
Target:  5'- gGGUGGCGCGCCGggaucccccucCGGggaGGGUggcgCGCCGg -3'
miRNA:   3'- -CCACCGCGCGGU-----------GUCag-CUCG----GCGGU- -5'
13301 3' -61.7 NC_003409.1 + 24887 0.69 0.445457
Target:  5'- gGGUGGCGCGCCGggaucccccucCGGggaGGGUggcgCGCCGg -3'
miRNA:   3'- -CCACCGCGCGGU-----------GUCag-CUCG----GCGGU- -5'
13301 3' -61.7 NC_003409.1 + 27054 0.7 0.411025
Target:  5'- -aUGGCGUugucGCCucgaGCAGUUGGGCCGCa- -3'
miRNA:   3'- ccACCGCG----CGG----UGUCAGCUCGGCGgu -5'
13301 3' -61.7 NC_003409.1 + 75015 0.7 0.394439
Target:  5'- aGUGGCGCGCC-CGGUgaCGAacauCUGCCAu -3'
miRNA:   3'- cCACCGCGCGGuGUCA--GCUc---GGCGGU- -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.