miRNA display CGI


Results 1 - 20 of 26 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
11565 3' -61.1 NC_003085.1 + 40343 0.66 0.425336
Target:  5'- uGCCUCaGUGGGcGGuGGGCAagccgcugcuGCCcgCGGc -3'
miRNA:   3'- -UGGAGcCGCCU-CCuCCCGU----------UGGa-GCC- -5'
11565 3' -61.1 NC_003085.1 + 42612 0.66 0.416227
Target:  5'- cCCUCGGCGGAGacauucGcGGCGuuccCCUCGu -3'
miRNA:   3'- uGGAGCCGCCUCcu----C-CCGUu---GGAGCc -5'
11565 3' -61.1 NC_003085.1 + 400 0.66 0.415323
Target:  5'- uUCUUGGCGGcGGGcuucuucuucgcgGGGGCAGCggacggggaCUCGGc -3'
miRNA:   3'- uGGAGCCGCC-UCC-------------UCCCGUUG---------GAGCC- -5'
11565 3' -61.1 NC_003085.1 + 3648 0.66 0.407238
Target:  5'- -gCUCGGUGGcagacGGAGuGGCAcgacgagguugACCUCGa -3'
miRNA:   3'- ugGAGCCGCCu----CCUC-CCGU-----------UGGAGCc -5'
11565 3' -61.1 NC_003085.1 + 32122 0.66 0.389631
Target:  5'- gGCaCUCGGUGGugcgacGGGGGCGGCUgguggcgCGGu -3'
miRNA:   3'- -UG-GAGCCGCCuc----CUCCCGUUGGa------GCC- -5'
11565 3' -61.1 NC_003085.1 + 30331 0.66 0.384446
Target:  5'- cGCCUggggCGGCGGGGGcuGGGCGccgcgcaaggccugcGCCagGGc -3'
miRNA:   3'- -UGGA----GCCGCCUCCu-CCCGU---------------UGGagCC- -5'
11565 3' -61.1 NC_003085.1 + 44019 0.66 0.381015
Target:  5'- gGCCUCGGCGGuGGAGagacgggaagcGGUccgcucaagAGCgCUCGa -3'
miRNA:   3'- -UGGAGCCGCCuCCUC-----------CCG---------UUG-GAGCc -5'
11565 3' -61.1 NC_003085.1 + 49303 0.66 0.381015
Target:  5'- cGCgUCGGCGucccGGGA-GGCGACCUCc- -3'
miRNA:   3'- -UGgAGCCGCc---UCCUcCCGUUGGAGcc -5'
11565 3' -61.1 NC_003085.1 + 42548 0.67 0.355945
Target:  5'- cGCCUCGGCcagcgcgcGGGcGAGGGCugacgcgauGGCCUCa- -3'
miRNA:   3'- -UGGAGCCG--------CCUcCUCCCG---------UUGGAGcc -5'
11565 3' -61.1 NC_003085.1 + 45129 0.67 0.34785
Target:  5'- uACCggacagcCGGCGGAGGAGgcuGGCGACUg--- -3'
miRNA:   3'- -UGGa------GCCGCCUCCUC---CCGUUGGagcc -5'
11565 3' -61.1 NC_003085.1 + 35716 0.67 0.34785
Target:  5'- aACUUUGGCGGccacGGcGAGGGCAGgguggccgauguCCUCGc -3'
miRNA:   3'- -UGGAGCCGCC----UC-CUCCCGUU------------GGAGCc -5'
11565 3' -61.1 NC_003085.1 + 26053 0.67 0.339887
Target:  5'- aGCUcCGcGCGGAGuugcucggaGGGGGCAuuccCCUCGGc -3'
miRNA:   3'- -UGGaGC-CGCCUC---------CUCCCGUu---GGAGCC- -5'
11565 3' -61.1 NC_003085.1 + 23419 0.67 0.339887
Target:  5'- cGCCUCGGCGGcc---GGCGGCgCUUGGc -3'
miRNA:   3'- -UGGAGCCGCCuccucCCGUUG-GAGCC- -5'
11565 3' -61.1 NC_003085.1 + 23796 0.67 0.332057
Target:  5'- cGCCaCGGUGGGGGccGGGGCcgUCUUGa -3'
miRNA:   3'- -UGGaGCCGCCUCC--UCCCGuuGGAGCc -5'
11565 3' -61.1 NC_003085.1 + 11952 0.68 0.316798
Target:  5'- cGCCUgGGCGuGaAGGAgGGGCGGCgugagCGGa -3'
miRNA:   3'- -UGGAgCCGC-C-UCCU-CCCGUUGga---GCC- -5'
11565 3' -61.1 NC_003085.1 + 31683 0.68 0.304975
Target:  5'- -aCUCgGGCGGGGGcccuuggcuucgcucAGGGUGgcACCUUGGg -3'
miRNA:   3'- ugGAG-CCGCCUCC---------------UCCCGU--UGGAGCC- -5'
11565 3' -61.1 NC_003085.1 + 15066 0.68 0.294911
Target:  5'- aGCCUCgugggaguuGGCccuGGAGGAGGGaCGgcGCCUCa- -3'
miRNA:   3'- -UGGAG---------CCG---CCUCCUCCC-GU--UGGAGcc -5'
11565 3' -61.1 NC_003085.1 + 48522 0.68 0.294911
Target:  5'- uUCUCGGCGGc-GAGGGCGcggGCCUUc- -3'
miRNA:   3'- uGGAGCCGCCucCUCCCGU---UGGAGcc -5'
11565 3' -61.1 NC_003085.1 + 46869 0.69 0.280984
Target:  5'- gGCCUCGGaggcaGGGGaGAGGGUGcCCgUGGg -3'
miRNA:   3'- -UGGAGCCg----CCUC-CUCCCGUuGGaGCC- -5'
11565 3' -61.1 NC_003085.1 + 42191 0.69 0.267585
Target:  5'- aGCCUCGGCauGAGGcgcuGGGCGACa--GGg -3'
miRNA:   3'- -UGGAGCCGc-CUCCu---CCCGUUGgagCC- -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.