miRNA display CGI


Results 1 - 20 of 27 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
11884 3' -56.1 NC_003266.2 + 13091 1.1 0.00039
Target:  5'- uUCACCAACGCCAUCCUGAACCCCCACu -3'
miRNA:   3'- -AGUGGUUGCGGUAGGACUUGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 23335 0.78 0.09024
Target:  5'- gUCGCCAAccuCGCCAUCU---GCCCCCACc -3'
miRNA:   3'- -AGUGGUU---GCGGUAGGacuUGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 12101 0.74 0.160789
Target:  5'- -gGCCAACcggcucucgGCCAUCCUGGaggccgugguGCCCUCGCg -3'
miRNA:   3'- agUGGUUG---------CGGUAGGACU----------UGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 16934 0.73 0.190178
Target:  5'- cCACCAcccgcCGCCGUCgucgccgcacagCUGAACUCCCGCu -3'
miRNA:   3'- aGUGGUu----GCGGUAG------------GACUUGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 662 0.73 0.195513
Target:  5'- -gGgCGACGaCCAUCCgGAAcCCCCCACc -3'
miRNA:   3'- agUgGUUGC-GGUAGGaCUU-GGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 15318 0.72 0.243049
Target:  5'- gUUACUGACGCCAgacgCCgcaccuGCCCCUACg -3'
miRNA:   3'- -AGUGGUUGCGGUa---GGacu---UGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 26353 0.71 0.263216
Target:  5'- cCGCCGGCGCCGcCCaGGACUacuccaCCCGCa -3'
miRNA:   3'- aGUGGUUGCGGUaGGaCUUGG------GGGUG- -5'
11884 3' -56.1 NC_003266.2 + 15887 0.71 0.277403
Target:  5'- -uGCCGGCGCUGgcgCCUGAAgCCgCGCg -3'
miRNA:   3'- agUGGUUGCGGUa--GGACUUgGGgGUG- -5'
11884 3' -56.1 NC_003266.2 + 12659 0.69 0.348771
Target:  5'- aCACCGucGCGCgGUCCccgaccgGAGCCUgCACg -3'
miRNA:   3'- aGUGGU--UGCGgUAGGa------CUUGGGgGUG- -5'
11884 3' -56.1 NC_003266.2 + 8337 0.69 0.360984
Target:  5'- cCACCAacgGCGCgGUggagaucaaguaccaUCUGGACCuCCCGCg -3'
miRNA:   3'- aGUGGU---UGCGgUA---------------GGACUUGG-GGGUG- -5'
11884 3' -56.1 NC_003266.2 + 9670 0.68 0.393733
Target:  5'- cCACCAucCGCCGUCUcaGAACCgCCUAUu -3'
miRNA:   3'- aGUGGUu-GCGGUAGGa-CUUGG-GGGUG- -5'
11884 3' -56.1 NC_003266.2 + 11952 0.68 0.393734
Target:  5'- gCAgCAACaGCCAccUCCUGA-UCCCCAa -3'
miRNA:   3'- aGUgGUUG-CGGU--AGGACUuGGGGGUg -5'
11884 3' -56.1 NC_003266.2 + 31158 0.68 0.403166
Target:  5'- cCACCGAccauCGCCucUCCUacGAGCUCCUGCa -3'
miRNA:   3'- aGUGGUU----GCGGu-AGGA--CUUGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 3643 0.68 0.422455
Target:  5'- cCGCCAGCGCCGUgcgcggaauggCCaUGGGCgCCgGCu -3'
miRNA:   3'- aGUGGUUGCGGUA-----------GG-ACUUGgGGgUG- -5'
11884 3' -56.1 NC_003266.2 + 13679 0.68 0.432304
Target:  5'- -aACCcguuCGCUcaCCUGcGCCCCCGCg -3'
miRNA:   3'- agUGGuu--GCGGuaGGACuUGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 15605 0.68 0.432304
Target:  5'- -gGCCGACGCUcgCaacuacACCCCCGCc -3'
miRNA:   3'- agUGGUUGCGGuaGgacu--UGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 30450 0.67 0.442287
Target:  5'- aUCGCCuaccuGCGCCA-CC---ACCCCCAg -3'
miRNA:   3'- -AGUGGu----UGCGGUaGGacuUGGGGGUg -5'
11884 3' -56.1 NC_003266.2 + 17701 0.67 0.442287
Target:  5'- -gAUCAACaGCCG-CCUGGAcccgguucCCCCCGCc -3'
miRNA:   3'- agUGGUUG-CGGUaGGACUU--------GGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 8496 0.67 0.452398
Target:  5'- cCACCAcUGCCuccggGUCCcGAgccGCCCCUACc -3'
miRNA:   3'- aGUGGUuGCGG-----UAGGaCU---UGGGGGUG- -5'
11884 3' -56.1 NC_003266.2 + 23883 0.67 0.458525
Target:  5'- gCACCcGCGCCGacucccuuuucaaCCUGGGCCCCgGu -3'
miRNA:   3'- aGUGGuUGCGGUa------------GGACUUGGGGgUg -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.