miRNA display CGI


Results 1 - 20 of 44 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
29408 3' -56.6 NC_006151.1 + 123759 0.66 0.896987
Target:  5'- gUCUUUggCGcGGGCCCCGGgG-GCAu -3'
miRNA:   3'- gAGAAGaaGCuCCUGGGGCUgCgCGU- -5'
29408 3' -56.6 NC_006151.1 + 137939 0.66 0.896987
Target:  5'- gCUCccCUUUGGGGAcgcgcCCCCGGgcuucgacgaccCGCGCAa -3'
miRNA:   3'- -GAGaaGAAGCUCCU-----GGGGCU------------GCGCGU- -5'
29408 3' -56.6 NC_006151.1 + 60867 0.66 0.896987
Target:  5'- -------aCGAGGACCCgCGGCagccGCGCAg -3'
miRNA:   3'- gagaagaaGCUCCUGGG-GCUG----CGCGU- -5'
29408 3' -56.6 NC_006151.1 + 39742 0.66 0.896987
Target:  5'- gCUCgggC-UCGGGGACCCgGACuuugacgcggGCGCc -3'
miRNA:   3'- -GAGaa-GaAGCUCCUGGGgCUG----------CGCGu -5'
29408 3' -56.6 NC_006151.1 + 114894 0.66 0.890397
Target:  5'- -gCUUCccgggcgCGAGGcccgggcgcacgGCCCCGGCGuCGCGc -3'
miRNA:   3'- gaGAAGaa-----GCUCC------------UGGGGCUGC-GCGU- -5'
29408 3' -56.6 NC_006151.1 + 32923 0.66 0.890397
Target:  5'- -cCUUCcccCGAGGACCCCgcucccgccuGugGUGCc -3'
miRNA:   3'- gaGAAGaa-GCUCCUGGGG----------CugCGCGu -5'
29408 3' -56.6 NC_006151.1 + 129993 0.66 0.890397
Target:  5'- cCUCgUCgUCGGGGAuguCCgagaCGGCGCGCGc -3'
miRNA:   3'- -GAGaAGaAGCUCCU---GGg---GCUGCGCGU- -5'
29408 3' -56.6 NC_006151.1 + 123252 0.66 0.883583
Target:  5'- --gUUCUgCGAGG-CCgCCGcGCGCGCGg -3'
miRNA:   3'- gagAAGAaGCUCCuGG-GGC-UGCGCGU- -5'
29408 3' -56.6 NC_006151.1 + 103509 0.66 0.883583
Target:  5'- -gCUaCcgCGAGcugcugacguccGACCCCGGCGCGCu -3'
miRNA:   3'- gaGAaGaaGCUC------------CUGGGGCUGCGCGu -5'
29408 3' -56.6 NC_006151.1 + 99121 0.66 0.876549
Target:  5'- -gCUggcgCUgcu-GGACCCCGGgGCGCAg -3'
miRNA:   3'- gaGAa---GAagcuCCUGGGGCUgCGCGU- -5'
29408 3' -56.6 NC_006151.1 + 100130 0.66 0.869298
Target:  5'- -cCUUCcUCGGGGACCUgcUGgcACGCGCc -3'
miRNA:   3'- gaGAAGaAGCUCCUGGG--GC--UGCGCGu -5'
29408 3' -56.6 NC_006151.1 + 20288 0.66 0.861838
Target:  5'- aUCUUCc-CG-GGGCCCCGG-GCGCc -3'
miRNA:   3'- gAGAAGaaGCuCCUGGGGCUgCGCGu -5'
29408 3' -56.6 NC_006151.1 + 84482 0.67 0.854172
Target:  5'- uUCgcCUUCGAGGccgcugcgAUCCCGggcaGCGCGCGc -3'
miRNA:   3'- gAGaaGAAGCUCC--------UGGGGC----UGCGCGU- -5'
29408 3' -56.6 NC_006151.1 + 70303 0.67 0.854172
Target:  5'- gCUCUUUgucgaCGAGGccaacuuuauacGCCCCGAugcCGUGCAg -3'
miRNA:   3'- -GAGAAGaa---GCUCC------------UGGGGCU---GCGCGU- -5'
29408 3' -56.6 NC_006151.1 + 55216 0.67 0.846308
Target:  5'- -cCgggCUUCGGGcaccacGGCgCCGGCGCGCAg -3'
miRNA:   3'- gaGaa-GAAGCUC------CUGgGGCUGCGCGU- -5'
29408 3' -56.6 NC_006151.1 + 33990 0.67 0.83001
Target:  5'- aCUCUUUcccccgGAGGGgcgUCCCGGCGCGCc -3'
miRNA:   3'- -GAGAAGaag---CUCCU---GGGGCUGCGCGu -5'
29408 3' -56.6 NC_006151.1 + 2413 0.67 0.82159
Target:  5'- ---cUCggCGAGG-CCCCGGCGgcCGCAg -3'
miRNA:   3'- gagaAGaaGCUCCuGGGGCUGC--GCGU- -5'
29408 3' -56.6 NC_006151.1 + 64829 0.67 0.82159
Target:  5'- gCUCcUCcUCGAGGAuguCCCCGGCGaggGCc -3'
miRNA:   3'- -GAGaAGaAGCUCCU---GGGGCUGCg--CGu -5'
29408 3' -56.6 NC_006151.1 + 117530 0.67 0.82159
Target:  5'- ------cUCGGGGGCCCCcucccacgcggcGACGCGCc -3'
miRNA:   3'- gagaagaAGCUCCUGGGG------------CUGCGCGu -5'
29408 3' -56.6 NC_006151.1 + 30343 0.68 0.804248
Target:  5'- -gCggCggcgCGAGGgcgcgaaaACCCCGACGCGCc -3'
miRNA:   3'- gaGaaGaa--GCUCC--------UGGGGCUGCGCGu -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.