miRNA display CGI


Results 1 - 20 of 23 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
31736 5' -57.2 NC_006938.1 + 58171 0.66 0.70109
Target:  5'- --aGUuccUCGCgGACGCCaacguGGCgCUCGUCGGg -3'
miRNA:   3'- gagCA---AGCG-CUGUGG-----CCG-GAGCAGCU- -5'
31736 5' -57.2 NC_006938.1 + 38676 0.66 0.70109
Target:  5'- aCUCcaUCGCGACACgGGUCgCGUUc- -3'
miRNA:   3'- -GAGcaAGCGCUGUGgCCGGaGCAGcu -5'
31736 5' -57.2 NC_006938.1 + 45353 0.66 0.659078
Target:  5'- uUCGUgCGUGAUGCCaGCCUCacaauauuccaaGUCGGa -3'
miRNA:   3'- gAGCAaGCGCUGUGGcCGGAG------------CAGCU- -5'
31736 5' -57.2 NC_006938.1 + 61107 0.67 0.637894
Target:  5'- --gGUccUUGCGAUAgUCGGCCUCGUCc- -3'
miRNA:   3'- gagCA--AGCGCUGU-GGCCGGAGCAGcu -5'
31736 5' -57.2 NC_006938.1 + 53347 0.67 0.627291
Target:  5'- gCUCGgcCGuCGACagcaagACCGGCCUCuccGUUGAc -3'
miRNA:   3'- -GAGCaaGC-GCUG------UGGCCGGAG---CAGCU- -5'
31736 5' -57.2 NC_006938.1 + 51398 0.67 0.616691
Target:  5'- uUCGagagCGUGugGCCGGCCaUCGcCGc -3'
miRNA:   3'- gAGCaa--GCGCugUGGCCGG-AGCaGCu -5'
31736 5' -57.2 NC_006938.1 + 3389 0.67 0.606103
Target:  5'- gUUGaUUGUGACACCGGCUcCGgCGAc -3'
miRNA:   3'- gAGCaAGCGCUGUGGCCGGaGCaGCU- -5'
31736 5' -57.2 NC_006938.1 + 39839 0.68 0.553635
Target:  5'- gUUGUUCGCGGCACCacucagGGCg-CGcUCGAg -3'
miRNA:   3'- gAGCAAGCGCUGUGG------CCGgaGC-AGCU- -5'
31736 5' -57.2 NC_006938.1 + 15533 0.68 0.543287
Target:  5'- -cCGUcCGCGcCGCCcgaGGUCUUGUCGAg -3'
miRNA:   3'- gaGCAaGCGCuGUGG---CCGGAGCAGCU- -5'
31736 5' -57.2 NC_006938.1 + 39794 0.68 0.543287
Target:  5'- -cUGagCGUGACACCGGCCcucCGUCu- -3'
miRNA:   3'- gaGCaaGCGCUGUGGCCGGa--GCAGcu -5'
31736 5' -57.2 NC_006938.1 + 62985 0.68 0.543287
Target:  5'- -gCGgagccUCuCGGCACCGGCCUCccacauGUCGAu -3'
miRNA:   3'- gaGCa----AGcGCUGUGGCCGGAG------CAGCU- -5'
31736 5' -57.2 NC_006938.1 + 20179 0.69 0.522789
Target:  5'- -aUGUUCGaCGAgGCCGGUgUCG-CGAa -3'
miRNA:   3'- gaGCAAGC-GCUgUGGCCGgAGCaGCU- -5'
31736 5' -57.2 NC_006938.1 + 26037 0.69 0.510634
Target:  5'- cCUCGUccagcuugccaGCGGCGgCGGCCUCGagcUCGGg -3'
miRNA:   3'- -GAGCAag---------CGCUGUgGCCGGAGC---AGCU- -5'
31736 5' -57.2 NC_006938.1 + 14072 0.69 0.502596
Target:  5'- cCUUGaUCGCGAagaCGGUgUCGUCGAc -3'
miRNA:   3'- -GAGCaAGCGCUgugGCCGgAGCAGCU- -5'
31736 5' -57.2 NC_006938.1 + 45499 0.7 0.463292
Target:  5'- gCUCGgaUCuCGACcuccaugaGCCGGuCCUCGUCGAc -3'
miRNA:   3'- -GAGCa-AGcGCUG--------UGGCC-GGAGCAGCU- -5'
31736 5' -57.2 NC_006938.1 + 61419 0.7 0.425659
Target:  5'- gUCGg-CGUGGCACCGGCcCUCGacacggagcaUCGAg -3'
miRNA:   3'- gAGCaaGCGCUGUGGCCG-GAGC----------AGCU- -5'
31736 5' -57.2 NC_006938.1 + 42830 0.71 0.398659
Target:  5'- cCUCcaUCaGCGACACCuGCCUCcgGUCGAg -3'
miRNA:   3'- -GAGcaAG-CGCUGUGGcCGGAG--CAGCU- -5'
31736 5' -57.2 NC_006938.1 + 17907 0.71 0.398659
Target:  5'- -cCGUUCuCGGCcucCCGGCCUCGaUCGGu -3'
miRNA:   3'- gaGCAAGcGCUGu--GGCCGGAGC-AGCU- -5'
31736 5' -57.2 NC_006938.1 + 20330 0.72 0.372781
Target:  5'- -cUGUUCGCcgcgaaGGCACUGGCCggguaggacUCGUCGAa -3'
miRNA:   3'- gaGCAAGCG------CUGUGGCCGG---------AGCAGCU- -5'
31736 5' -57.2 NC_006938.1 + 12289 0.73 0.302234
Target:  5'- -gCGgaaCGCGcCACCGGCCUgGUUGAg -3'
miRNA:   3'- gaGCaa-GCGCuGUGGCCGGAgCAGCU- -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.