miRNA display CGI


Results 1 - 20 of 22 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
26536 5' -60.6 NC_005357.1 + 11569 0.66 0.397772
Target:  5'- -cGGuCAUCGaagccaugccGCCCAGGgccgccggcUGGcCGCCGg -3'
miRNA:   3'- caCCuGUAGC----------CGGGUCC---------ACCaGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 12339 0.66 0.388859
Target:  5'- -gGGACAagGGCCguGGcgcccgGG-CGCCGc -3'
miRNA:   3'- caCCUGUagCCGGguCCa-----CCaGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 32339 0.66 0.388859
Target:  5'- --cGACAaccgCcGCCCAGGUcgcugcGGUCGCCGc -3'
miRNA:   3'- cacCUGUa---GcCGGGUCCA------CCAGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 12580 0.66 0.380079
Target:  5'- -aGGAag-CGGCacaaCAGG-GGUCGCUGc -3'
miRNA:   3'- caCCUguaGCCGg---GUCCaCCAGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 4060 0.66 0.380079
Target:  5'- -aGGcCAgCGGCCCAGGggggauUGGUaGCCa -3'
miRNA:   3'- caCCuGUaGCCGGGUCC------ACCAgCGGc -5'
26536 5' -60.6 NC_005357.1 + 19954 0.66 0.380079
Target:  5'- cGUGGACAggcaaCCCAGGUuucgggcaGGcCGCCGa -3'
miRNA:   3'- -CACCUGUagcc-GGGUCCA--------CCaGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 26599 0.66 0.371432
Target:  5'- -cGGACGgcguguUCGaGUCCugcgcGGUGGUgGCCGa -3'
miRNA:   3'- caCCUGU------AGC-CGGGu----CCACCAgCGGC- -5'
26536 5' -60.6 NC_005357.1 + 8606 0.66 0.366308
Target:  5'- cUGGAUAagcugguugcgcuucUCGGCCgCugcGGUggcgaGGUCGCCGg -3'
miRNA:   3'- cACCUGU---------------AGCCGG-Gu--CCA-----CCAGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 41729 0.66 0.346306
Target:  5'- cUGGGCGguaucuugggCGGCCCGGccGG-CGCCGc -3'
miRNA:   3'- cACCUGUa---------GCCGGGUCcaCCaGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 34863 0.67 0.338206
Target:  5'- cGUGGACGU--GUCCAagccGGUGG-CGCCGc -3'
miRNA:   3'- -CACCUGUAgcCGGGU----CCACCaGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 35575 0.67 0.330244
Target:  5'- cGUGGugGggGGCCUacgaaaAGGccGUCGCCGa -3'
miRNA:   3'- -CACCugUagCCGGG------UCCacCAGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 3964 0.67 0.307194
Target:  5'- cUGGugcCAUCGG-UCAGGUGGUugaCGCCa -3'
miRNA:   3'- cACCu--GUAGCCgGGUCCACCA---GCGGc -5'
26536 5' -60.6 NC_005357.1 + 18402 0.67 0.307194
Target:  5'- gGUGGcggccACGUCGGCgaAGGUGGcguugucCGCCGa -3'
miRNA:   3'- -CACC-----UGUAGCCGggUCCACCa------GCGGC- -5'
26536 5' -60.6 NC_005357.1 + 5523 0.68 0.285394
Target:  5'- -aGGACA-CGccggccGCCCAGGUuccgcccaGGUCGCCc -3'
miRNA:   3'- caCCUGUaGC------CGGGUCCA--------CCAGCGGc -5'
26536 5' -60.6 NC_005357.1 + 17419 0.68 0.262185
Target:  5'- -cGGACggcaacccgcugucGUCGGCCCccuuugugcugguGGGUGGgcgCGUCGa -3'
miRNA:   3'- caCCUG--------------UAGCCGGG-------------UCCACCa--GCGGC- -5'
26536 5' -60.6 NC_005357.1 + 39596 0.68 0.258252
Target:  5'- -cGGGC--UGGCCUuuccucaauAGGUGGUCaGCCGg -3'
miRNA:   3'- caCCUGuaGCCGGG---------UCCACCAG-CGGC- -5'
26536 5' -60.6 NC_005357.1 + 16418 0.69 0.239308
Target:  5'- -aGGACA-CGGCCgCGGGguaaUCGCCGg -3'
miRNA:   3'- caCCUGUaGCCGG-GUCCacc-AGCGGC- -5'
26536 5' -60.6 NC_005357.1 + 3418 0.69 0.235661
Target:  5'- -gGGGCcuuUCGGCCCcgcuacucaagaaucAGGUGGUcacagaCGCCGc -3'
miRNA:   3'- caCCUGu--AGCCGGG---------------UCCACCA------GCGGC- -5'
26536 5' -60.6 NC_005357.1 + 24729 0.7 0.199608
Target:  5'- aUGGGCAUuuccCGGCCCGaGUGGcgcuUCGCCu -3'
miRNA:   3'- cACCUGUA----GCCGGGUcCACC----AGCGGc -5'
26536 5' -60.6 NC_005357.1 + 27637 0.71 0.176747
Target:  5'- -cGGugGUUGGucggcaugaaagcuaCCCAGGUGGgCGCCa -3'
miRNA:   3'- caCCugUAGCC---------------GGGUCCACCaGCGGc -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.