miRNA display CGI


Results 1 - 20 of 40 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
7660 3' -60.4 NC_001973.1 + 4643 0.69 0.547769
Target:  5'- cCCUgUCGGcgGCggGCGCCGucgGCGAGUCGg -3'
miRNA:   3'- aGGGgAGCCa-CG--UGCGGU---UGCUCGGC- -5'
7660 3' -60.4 NC_001973.1 + 5924 0.66 0.723445
Target:  5'- gUCgCCCgCGGUcGCGCGCaCGAUGcgcgacgcGGCCGg -3'
miRNA:   3'- -AG-GGGaGCCA-CGUGCG-GUUGC--------UCGGC- -5'
7660 3' -60.4 NC_001973.1 + 6417 0.69 0.596394
Target:  5'- gCgCggCGGcgGCGCGCCGACGAGCgCGc -3'
miRNA:   3'- aGgGgaGCCa-CGUGCGGUUGCUCG-GC- -5'
7660 3' -60.4 NC_001973.1 + 14678 0.66 0.742336
Target:  5'- gCCgCC-CGGUGCuguucgacauCGCCAACGAauggacauuGCCGc -3'
miRNA:   3'- aGG-GGaGCCACGu---------GCGGUUGCU---------CGGC- -5'
7660 3' -60.4 NC_001973.1 + 17339 0.71 0.48204
Target:  5'- gUCCCgUgGGgGuCACGCCGauuucgcgGCGAGCCGu -3'
miRNA:   3'- -AGGGgAgCCaC-GUGCGGU--------UGCUCGGC- -5'
7660 3' -60.4 NC_001973.1 + 18261 0.7 0.509788
Target:  5'- gUCCCgUCGGcGCACacgGCCGACGAGggcaCCa -3'
miRNA:   3'- -AGGGgAGCCaCGUG---CGGUUGCUC----GGc -5'
7660 3' -60.4 NC_001973.1 + 22960 0.7 0.500461
Target:  5'- aUCCUCgaguacgcgCGGcgGCGCGCCGACGccgacGCCGa -3'
miRNA:   3'- -AGGGGa--------GCCa-CGUGCGGUUGCu----CGGC- -5'
7660 3' -60.4 NC_001973.1 + 24155 0.67 0.694583
Target:  5'- cCCgCCUCGGcgcugGCGCuGCCGcuGCG-GCCGc -3'
miRNA:   3'- aGG-GGAGCCa----CGUG-CGGU--UGCuCGGC- -5'
7660 3' -60.4 NC_001973.1 + 26169 0.66 0.751651
Target:  5'- uUCCgCCggcgCGG-GCGCGUCGACGGcGCUc -3'
miRNA:   3'- -AGG-GGa---GCCaCGUGCGGUUGCU-CGGc -5'
7660 3' -60.4 NC_001973.1 + 26617 0.7 0.509788
Target:  5'- cUCCCgUUUGGcgGCuuccaaguccGCGCCGGCGGGCCa -3'
miRNA:   3'- -AGGG-GAGCCa-CG----------UGCGGUUGCUCGGc -5'
7660 3' -60.4 NC_001973.1 + 31366 0.71 0.48204
Target:  5'- gUCgCCgcggCGGUGUGCGCCAGCGAcgGCa- -3'
miRNA:   3'- -AGgGGa---GCCACGUGCGGUUGCU--CGgc -5'
7660 3' -60.4 NC_001973.1 + 31974 0.68 0.635763
Target:  5'- --aCCUCGGgcUGCGCGCCGAUcuccGCCGc -3'
miRNA:   3'- aggGGAGCC--ACGUGCGGUUGcu--CGGC- -5'
7660 3' -60.4 NC_001973.1 + 33000 0.71 0.434912
Target:  5'- aCCgCCUCGGccguggcGCACuugauguucaaccaGCCGACGAGCCa -3'
miRNA:   3'- aGG-GGAGCCa------CGUG--------------CGGUUGCUCGGc -5'
7660 3' -60.4 NC_001973.1 + 33646 0.67 0.694583
Target:  5'- aCgCUUUGG-GCGCGUCGucuuCGAGCCGc -3'
miRNA:   3'- aGgGGAGCCaCGUGCGGUu---GCUCGGC- -5'
7660 3' -60.4 NC_001973.1 + 34065 0.68 0.616056
Target:  5'- gCUgCUCGGUGaugaGCGCCAucuuggcggugGCGuAGCCGc -3'
miRNA:   3'- aGGgGAGCCACg---UGCGGU-----------UGC-UCGGC- -5'
7660 3' -60.4 NC_001973.1 + 40041 0.7 0.508852
Target:  5'- gCCUgagCUCGGUguacagcucgcGCACGCCGucccacacgcucaGCGGGCCGa -3'
miRNA:   3'- aGGG---GAGCCA-----------CGUGCGGU-------------UGCUCGGC- -5'
7660 3' -60.4 NC_001973.1 + 53854 0.7 0.538181
Target:  5'- gCCCCggCGGcgGCgGCGCCGcCGAGCgCGg -3'
miRNA:   3'- aGGGGa-GCCa-CG-UGCGGUuGCUCG-GC- -5'
7660 3' -60.4 NC_001973.1 + 54957 0.69 0.596394
Target:  5'- gUUCag-CGG-GCACGCCGAUGAGgCCGg -3'
miRNA:   3'- -AGGggaGCCaCGUGCGGUUGCUC-GGC- -5'
7660 3' -60.4 NC_001973.1 + 56638 0.67 0.684855
Target:  5'- uUUUCUUCGGcGCG-GCCAaagGCGGGCCGu -3'
miRNA:   3'- -AGGGGAGCCaCGUgCGGU---UGCUCGGC- -5'
7660 3' -60.4 NC_001973.1 + 58759 0.66 0.742336
Target:  5'- gCCCCUC-GUGgAagagUGCCGGCGcGCCGu -3'
miRNA:   3'- aGGGGAGcCACgU----GCGGUUGCuCGGC- -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.