miRNA display CGI


Results 1 - 20 of 27 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
8808 5' -60.8 NC_002484.1 + 904 0.7 0.228063
Target:  5'- gUGGUGGCGCCGgaGUagaccuCGGCCCCCgacucGCCa -3'
miRNA:   3'- -ACCGUCGCGGU--UAgc----GUCGGGGG-----UGG- -5'
8808 5' -60.8 NC_002484.1 + 1551 0.69 0.258032
Target:  5'- cGGCAGCcuGCCAuGUCGCAaucgugaagucgcGCUUCUGCCg -3'
miRNA:   3'- aCCGUCG--CGGU-UAGCGU-------------CGGGGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 4032 0.74 0.11421
Target:  5'- aGGCGGCgcgGCCGAU-GCGGauuucauCCCCCGCCa -3'
miRNA:   3'- aCCGUCG---CGGUUAgCGUC-------GGGGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 4443 0.69 0.258676
Target:  5'- cGaCAGCGCCAggcauaucgGUCGgGGugucaccaCCCCCGCCa -3'
miRNA:   3'- aCcGUCGCGGU---------UAGCgUC--------GGGGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 6549 0.66 0.405361
Target:  5'- uUGGCAG-GCCucGUCuuCGGCCCCU-CCa -3'
miRNA:   3'- -ACCGUCgCGGu-UAGc-GUCGGGGGuGG- -5'
8808 5' -60.8 NC_002484.1 + 6956 0.66 0.431918
Target:  5'- cUGGCAGUggucuccGCCug-CGUAGCgUCCGCa -3'
miRNA:   3'- -ACCGUCG-------CGGuuaGCGUCGgGGGUGg -5'
8808 5' -60.8 NC_002484.1 + 8412 0.67 0.337683
Target:  5'- uUGGCGGCaauGCUggcuggaacGAUC-CAGCCaauCCCACCg -3'
miRNA:   3'- -ACCGUCG---CGG---------UUAGcGUCGG---GGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 8736 0.69 0.278608
Target:  5'- cGGCAcugaGUCAG-CGCAGCgCCCAUCg -3'
miRNA:   3'- aCCGUcg--CGGUUaGCGUCGgGGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 8822 0.67 0.345678
Target:  5'- ---uGGCGCCGgaAUCGgugacgaaaCGGCCUCCGCCg -3'
miRNA:   3'- accgUCGCGGU--UAGC---------GUCGGGGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 9513 0.66 0.387657
Target:  5'- aGuGCGGCGUCGGggcauUCGCAGUCUUguCCg -3'
miRNA:   3'- aC-CGUCGCGGUU-----AGCGUCGGGGguGG- -5'
8808 5' -60.8 NC_002484.1 + 11494 1.11 0.000198
Target:  5'- gUGGCAGCGCCAAUCGCAGCCCCCACCu -3'
miRNA:   3'- -ACCGUCGCGGUUAGCGUCGGGGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 13479 0.7 0.228063
Target:  5'- cGGCA--GCCGAa-GCAGCCgCCGCCg -3'
miRNA:   3'- aCCGUcgCGGUUagCGUCGGgGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 14009 0.67 0.378997
Target:  5'- -aGCAuUGCCucacuGUCGUugAGCCUCCACCu -3'
miRNA:   3'- acCGUcGCGGu----UAGCG--UCGGGGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 14738 0.69 0.263875
Target:  5'- -cGCAGCGCgGcgguauugaugagGUCGUaguagccGGCCUCCACCu -3'
miRNA:   3'- acCGUCGCGgU-------------UAGCG-------UCGGGGGUGG- -5'
8808 5' -60.8 NC_002484.1 + 16891 0.68 0.3221
Target:  5'- aGGUAGagGCCGccGUUGguGCCgaCCACCu -3'
miRNA:   3'- aCCGUCg-CGGU--UAGCguCGGg-GGUGG- -5'
8808 5' -60.8 NC_002484.1 + 18138 0.67 0.335311
Target:  5'- cGGCGGCGCauuccguAUCGCcacGCCCUguuacggucugucaCGCCg -3'
miRNA:   3'- aCCGUCGCGgu-----UAGCGu--CGGGG--------------GUGG- -5'
8808 5' -60.8 NC_002484.1 + 26110 0.76 0.079992
Target:  5'- cGGUAGUGCCGcgCGCcgAGCCagacaCCGCCg -3'
miRNA:   3'- aCCGUCGCGGUuaGCG--UCGGg----GGUGG- -5'
8808 5' -60.8 NC_002484.1 + 32768 0.68 0.329824
Target:  5'- gGGCaugacaguGGCGCCAAUC-UGGCUCaCCGCUa -3'
miRNA:   3'- aCCG--------UCGCGGUUAGcGUCGGG-GGUGG- -5'
8808 5' -60.8 NC_002484.1 + 37095 0.69 0.285519
Target:  5'- aGGCAGCccguaCCAAggGCaaGGCCCUgGCCg -3'
miRNA:   3'- aCCGUCGc----GGUUagCG--UCGGGGgUGG- -5'
8808 5' -60.8 NC_002484.1 + 38227 0.68 0.292565
Target:  5'- cGGcCGGCGCCGAuaUCGCcGCUgugcucggCCUGCCg -3'
miRNA:   3'- aCC-GUCGCGGUU--AGCGuCGG--------GGGUGG- -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.