miRNA display CGI


Results 1 - 20 of 178 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
33589 3' -63.7 NC_007605.1 + 150767 0.66 0.596069
Target:  5'- gAGGCCGCgccagagcagagccCGggacUGaCUCAGGGCCAcauccccuCGGCc -3'
miRNA:   3'- -UCCGGCG--------------GU----AC-GAGUCCCGGU--------GCCGc -5'
33589 3' -63.7 NC_007605.1 + 66243 0.66 0.570033
Target:  5'- aAGGCCGCCGauCUgGGGGUgAUGGa- -3'
miRNA:   3'- -UCCGGCGGUacGAgUCCCGgUGCCgc -5'
33589 3' -63.7 NC_007605.1 + 157073 0.66 0.560457
Target:  5'- aGGGaCCcUCAUGCUCuugcgcAGGGUgACGGUGg -3'
miRNA:   3'- -UCC-GGcGGUACGAG------UCCCGgUGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 47063 0.66 0.589297
Target:  5'- cAGGCCGCCAacgcccagaagGcCUCGcGGGUCAUGGa- -3'
miRNA:   3'- -UCCGGCGGUa----------C-GAGU-CCCGGUGCCgc -5'
33589 3' -63.7 NC_007605.1 + 132221 0.66 0.559502
Target:  5'- cGGCCGCCcgGCUgcccccggagcgcCAGGaaccccggcuGCCccaggaccugGCGGCGg -3'
miRNA:   3'- uCCGGCGGuaCGA-------------GUCC----------CGG----------UGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 132721 0.66 0.550926
Target:  5'- cGGCCGCCcgGCUgccccggagcgcCAGGaaccccggcuGCCccaggaccugGCGGCGg -3'
miRNA:   3'- uCCGGCGGuaCGA------------GUCC----------CGG----------UGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 166749 0.66 0.550926
Target:  5'- aAGGCCGCCAggagGCUUucauGGCCccUGGUGc -3'
miRNA:   3'- -UCCGGCGGUa---CGAGuc--CCGGu-GCCGC- -5'
33589 3' -63.7 NC_007605.1 + 132346 0.66 0.559502
Target:  5'- cGGCCGCCcgGCUgcccccggagcgcCAGGaaccccggcuGCCccaggaccugGCGGCGg -3'
miRNA:   3'- uCCGGCGGuaCGA-------------GUCC----------CGG----------UGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 132096 0.66 0.559502
Target:  5'- cGGCCGCCcgGCUgcccccggagcgcCAGGaaccccggcuGCCccaggaccugGCGGCGg -3'
miRNA:   3'- uCCGGCGGuaCGA-------------GUCC----------CGG----------UGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 122525 0.66 0.579648
Target:  5'- uGGCCcguuguagGCCAgGgUCuGGGCCACGuGCu -3'
miRNA:   3'- uCCGG--------CGGUaCgAGuCCCGGUGC-CGc -5'
33589 3' -63.7 NC_007605.1 + 154664 0.66 0.550926
Target:  5'- cGaGCCGCC-UGCgccccUCGGGGCC-CGuGCa -3'
miRNA:   3'- uC-CGGCGGuACG-----AGUCCCGGuGC-CGc -5'
33589 3' -63.7 NC_007605.1 + 31006 0.66 0.550926
Target:  5'- cGGCCGCCcccgaGCUcCAGGG-CugGGUc -3'
miRNA:   3'- uCCGGCGGua---CGA-GUCCCgGugCCGc -5'
33589 3' -63.7 NC_007605.1 + 132471 0.66 0.559502
Target:  5'- cGGCCGCCcgGCUgcccccggagcgcCAGGaaccccggcuGCCccaggaccugGCGGCGg -3'
miRNA:   3'- uCCGGCGGuaCGA-------------GUCC----------CGG----------UGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 131971 0.66 0.559502
Target:  5'- cGGCCGCCcgGCUgcccccggagcgcCAGGaaccccggcuGCCccaggaccugGCGGCGg -3'
miRNA:   3'- uCCGGCGGuaCGA-------------GUCC----------CGG----------UGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 59375 0.66 0.550926
Target:  5'- gAGGUCucaaCCuucuggGCUC-GGGCCGCGGUGu -3'
miRNA:   3'- -UCCGGc---GGua----CGAGuCCCGGUGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 113713 0.66 0.570033
Target:  5'- uGGGUacguaGUCGuUGUUCAGGGCCgugcAUGGCa -3'
miRNA:   3'- -UCCGg----CGGU-ACGAGUCCCGG----UGCCGc -5'
33589 3' -63.7 NC_007605.1 + 162043 0.66 0.560457
Target:  5'- cGGCCGuacaCCcgGCccugCAGGGCCGCguccaggucuGGCa -3'
miRNA:   3'- uCCGGC----GGuaCGa---GUCCCGGUG----------CCGc -5'
33589 3' -63.7 NC_007605.1 + 76100 0.66 0.596069
Target:  5'- cAGGCCuCCAUGgUgaugaucuaacagaCAGGGaCgGCGGCGc -3'
miRNA:   3'- -UCCGGcGGUACgA--------------GUCCC-GgUGCCGC- -5'
33589 3' -63.7 NC_007605.1 + 149064 0.66 0.598974
Target:  5'- aAGGCCuggGCCAUGCUCuggccGGUCACGa-- -3'
miRNA:   3'- -UCCGG---CGGUACGAGuc---CCGGUGCcgc -5'
33589 3' -63.7 NC_007605.1 + 109461 0.66 0.598974
Target:  5'- cGGCCGCgGacaUCAaGGCCAUGGCc -3'
miRNA:   3'- uCCGGCGgUacgAGUcCCGGUGCCGc -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.