miRNA display CGI


Results 1 - 20 of 20 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
16259 5' -55.6 NC_004084.1 + 18634 0.66 0.781649
Target:  5'- cCGAGUUGGccgaccucgucgccGUCuUCGGCGUCGGgaucAGCc- -3'
miRNA:   3'- -GCUCAGCC--------------UAG-AGCUGCAGCC----UCGcu -5'
16259 5' -55.6 NC_004084.1 + 16956 0.66 0.75497
Target:  5'- gCGAcGUCGGGUCUUcgagcgccugGACGacUCGGuagaAGCGAu -3'
miRNA:   3'- -GCU-CAGCCUAGAG----------CUGC--AGCC----UCGCU- -5'
16259 5' -55.6 NC_004084.1 + 19013 0.66 0.764963
Target:  5'- gGGGUgGGAUCcCGGCGugUCGGGGauguaGAc -3'
miRNA:   3'- gCUCAgCCUAGaGCUGC--AGCCUCg----CU- -5'
16259 5' -55.6 NC_004084.1 + 49881 0.66 0.764963
Target:  5'- gGAcGUC-GAUCUCGAgGUCGGguacAGCGc -3'
miRNA:   3'- gCU-CAGcCUAGAGCUgCAGCC----UCGCu -5'
16259 5' -55.6 NC_004084.1 + 19414 0.66 0.78455
Target:  5'- gGAGUCGuGAUCccCGuCGaUCGGGGUGu -3'
miRNA:   3'- gCUCAGC-CUAGa-GCuGC-AGCCUCGCu -5'
16259 5' -55.6 NC_004084.1 + 19619 0.66 0.771882
Target:  5'- aCGAGUCGGGgagcgaguuccggCUCGACGacgauggcguccaugUGGAGCc- -3'
miRNA:   3'- -GCUCAGCCUa------------GAGCUGCa--------------GCCUCGcu -5'
16259 5' -55.6 NC_004084.1 + 52663 0.66 0.75497
Target:  5'- gCGAGaCGGAgaUCGuCGUCGaGGCGAu -3'
miRNA:   3'- -GCUCaGCCUagAGCuGCAGCcUCGCU- -5'
16259 5' -55.6 NC_004084.1 + 53267 0.66 0.744857
Target:  5'- aCGAGaUCGGGcCgggCGACGUCcuGGCGAc -3'
miRNA:   3'- -GCUC-AGCCUaGa--GCUGCAGccUCGCU- -5'
16259 5' -55.6 NC_004084.1 + 27471 0.66 0.734636
Target:  5'- -cGGUCGGcguccucgagCUCGACGUCGacgaGGCGAu -3'
miRNA:   3'- gcUCAGCCua--------GAGCUGCAGCc---UCGCU- -5'
16259 5' -55.6 NC_004084.1 + 5358 0.66 0.734636
Target:  5'- gCGAGgacUGGGacgaUCUCGACGUCGaaccuGGGCGu -3'
miRNA:   3'- -GCUCa--GCCU----AGAGCUGCAGC-----CUCGCu -5'
16259 5' -55.6 NC_004084.1 + 5043 0.67 0.71391
Target:  5'- aCGAGggcCGGAUCUUGuaGCGgucggCGGAGUa- -3'
miRNA:   3'- -GCUCa--GCCUAGAGC--UGCa----GCCUCGcu -5'
16259 5' -55.6 NC_004084.1 + 7485 0.67 0.724317
Target:  5'- gGAGaUCaGGGUCgUCGACGUCGaGGcCGAu -3'
miRNA:   3'- gCUC-AG-CCUAG-AGCUGCAGCcUC-GCU- -5'
16259 5' -55.6 NC_004084.1 + 676 0.67 0.71391
Target:  5'- gGAuGUCGGcuUCgUCGACGUCcucGAGCGGu -3'
miRNA:   3'- gCU-CAGCCu-AG-AGCUGCAGc--CUCGCU- -5'
16259 5' -55.6 NC_004084.1 + 16684 0.67 0.703427
Target:  5'- cCGAagCGGGgcCUCGACGUUGGucGCGAu -3'
miRNA:   3'- -GCUcaGCCUa-GAGCUGCAGCCu-CGCU- -5'
16259 5' -55.6 NC_004084.1 + 52094 0.67 0.702375
Target:  5'- cCGAcGUUaccgccgGGAUgUCGACGUCGGAGaucucCGAu -3'
miRNA:   3'- -GCU-CAG-------CCUAgAGCUGCAGCCUC-----GCU- -5'
16259 5' -55.6 NC_004084.1 + 732 0.68 0.650226
Target:  5'- cCGAGgagCaacUCUCGACGUCGGAgGCGc -3'
miRNA:   3'- -GCUCa--GccuAGAGCUGCAGCCU-CGCu -5'
16259 5' -55.6 NC_004084.1 + 46563 0.68 0.660937
Target:  5'- -uGGUCGGA-CUCGGCaUCGGcaucgcGGCGAu -3'
miRNA:   3'- gcUCAGCCUaGAGCUGcAGCC------UCGCU- -5'
16259 5' -55.6 NC_004084.1 + 49831 0.69 0.564726
Target:  5'- aCGAGuucaUCGaAUCacucgUCGACGUCGcGAGCGAg -3'
miRNA:   3'- -GCUC----AGCcUAG-----AGCUGCAGC-CUCGCU- -5'
16259 5' -55.6 NC_004084.1 + 21769 0.71 0.492429
Target:  5'- gGGGaUCGGcggcaUCGACGUCGGGGCc- -3'
miRNA:   3'- gCUC-AGCCuag--AGCUGCAGCCUCGcu -5'
16259 5' -55.6 NC_004084.1 + 54224 1.09 0.001395
Target:  5'- uCGAGUCGGAUCUCGACGUCGGAGCGAu -3'
miRNA:   3'- -GCUCAGCCUAGAGCUGCAGCCUCGCU- -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.