miRNA display CGI


Results 1 - 20 of 34 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
23118 3' -56.7 NC_005178.1 + 16924 1.11 0.000397
Target:  5'- uCCCGGAUAUGGACGACAGCGCCCUGGc -3'
miRNA:   3'- -GGGCCUAUACCUGCUGUCGCGGGACC- -5'
23118 3' -56.7 NC_005178.1 + 19829 0.76 0.143738
Target:  5'- gCUGGA---GGACGGCAGCG-CCUGGa -3'
miRNA:   3'- gGGCCUauaCCUGCUGUCGCgGGACC- -5'
23118 3' -56.7 NC_005178.1 + 14861 0.75 0.160505
Target:  5'- aCCCGGcgAuccagcucggccUGGGCGAgGuCGCCCUGGg -3'
miRNA:   3'- -GGGCCuaU------------ACCUGCUgUcGCGGGACC- -5'
23118 3' -56.7 NC_005178.1 + 28123 0.75 0.164964
Target:  5'- gCCUGGGcgGUGGcaccgAUGGCGGCGCCCaGGg -3'
miRNA:   3'- -GGGCCUa-UACC-----UGCUGUCGCGGGaCC- -5'
23118 3' -56.7 NC_005178.1 + 31229 0.74 0.18393
Target:  5'- cCCCGGAcugGGGCGACAGCaucgucgaGCgCCUGa -3'
miRNA:   3'- -GGGCCUauaCCUGCUGUCG--------CG-GGACc -5'
23118 3' -56.7 NC_005178.1 + 21001 0.73 0.236191
Target:  5'- aCCGGGUucgccGUGGGCGGCAGCaccGCCaccggccugaccuacCUGGg -3'
miRNA:   3'- gGGCCUA-----UACCUGCUGUCG---CGG---------------GACC- -5'
23118 3' -56.7 NC_005178.1 + 31678 0.72 0.258629
Target:  5'- gCUGGAcgAUGGGCGGCcgagggccgguguAGCGgCCUGGc -3'
miRNA:   3'- gGGCCUa-UACCUGCUG-------------UCGCgGGACC- -5'
23118 3' -56.7 NC_005178.1 + 16861 0.71 0.279221
Target:  5'- uCCUGGAUGUgaucagccgcggaGGuaGCGAggccgagcugcuCGGCGCCCUGGc -3'
miRNA:   3'- -GGGCCUAUA-------------CC--UGCU------------GUCGCGGGACC- -5'
23118 3' -56.7 NC_005178.1 + 3011 0.71 0.28637
Target:  5'- gCCUGGAgcgcuuccUGGACcaGGCcgagcguGGCGCCCUGGu -3'
miRNA:   3'- -GGGCCUau------ACCUG--CUG-------UCGCGGGACC- -5'
23118 3' -56.7 NC_005178.1 + 17776 0.71 0.287092
Target:  5'- gCCGGGUuc-GACGGCagcccgauacagAGCGCCCUGa -3'
miRNA:   3'- gGGCCUAuacCUGCUG------------UCGCGGGACc -5'
23118 3' -56.7 NC_005178.1 + 17888 0.71 0.301849
Target:  5'- uCCUGGAcccGGuACGcCAGCGCgCCUGGc -3'
miRNA:   3'- -GGGCCUauaCC-UGCuGUCGCG-GGACC- -5'
23118 3' -56.7 NC_005178.1 + 30574 0.71 0.301849
Target:  5'- aUCCGuugGUGGuCGGCAGCGacaCCUGGc -3'
miRNA:   3'- -GGGCcuaUACCuGCUGUCGCg--GGACC- -5'
23118 3' -56.7 NC_005178.1 + 6115 0.7 0.332287
Target:  5'- uCCUGGAgcagcUGGAuaucaggccagauCGGCAGCGCCCa-- -3'
miRNA:   3'- -GGGCCUau---ACCU-------------GCUGUCGCGGGacc -5'
23118 3' -56.7 NC_005178.1 + 12064 0.7 0.333097
Target:  5'- uCCUGGugAUGGuuGCGAcCAGCGCCUggUGGa -3'
miRNA:   3'- -GGGCCuaUACC--UGCU-GUCGCGGG--ACC- -5'
23118 3' -56.7 NC_005178.1 + 20132 0.7 0.341271
Target:  5'- cCCUGGccucGUAUGcGGCGGCauAGCGCCC-GGc -3'
miRNA:   3'- -GGGCC----UAUAC-CUGCUG--UCGCGGGaCC- -5'
23118 3' -56.7 NC_005178.1 + 9326 0.7 0.341271
Target:  5'- gCCUGGAUA---GCGGCGGCGCCgCUcaGGa -3'
miRNA:   3'- -GGGCCUAUaccUGCUGUCGCGG-GA--CC- -5'
23118 3' -56.7 NC_005178.1 + 28670 0.69 0.375398
Target:  5'- gUCUGGAUGUaccGGGCGAUGGaGCCCaGGu -3'
miRNA:   3'- -GGGCCUAUA---CCUGCUGUCgCGGGaCC- -5'
23118 3' -56.7 NC_005178.1 + 26071 0.69 0.375398
Target:  5'- -aCGGcc-UGGACGACAuCGCCCgagGGg -3'
miRNA:   3'- ggGCCuauACCUGCUGUcGCGGGa--CC- -5'
23118 3' -56.7 NC_005178.1 + 17186 0.69 0.375398
Target:  5'- gCCUGGAUGUgcuccaGGACauccGCGaCGCCCUGGu -3'
miRNA:   3'- -GGGCCUAUA------CCUGc---UGUcGCGGGACC- -5'
23118 3' -56.7 NC_005178.1 + 4911 0.69 0.393306
Target:  5'- uCCCGGAaAUGGcCGAcCAGauCGCCgaGGa -3'
miRNA:   3'- -GGGCCUaUACCuGCU-GUC--GCGGgaCC- -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.