miRNA display CGI


Results 1 - 20 of 35 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
3011 3' -59.5 NC_001493.1 + 94680 0.66 0.759025
Target:  5'- --aCCGGGUCgu-GCCCGAccggggguacgUCCCGGu -3'
miRNA:   3'- agaGGCCCAGagcUGGGCU-----------AGGGCUu -5'
3011 3' -59.5 NC_001493.1 + 46347 0.66 0.749623
Target:  5'- uUCUCCGGGUgg-GACCgucuUCCCGAAu -3'
miRNA:   3'- -AGAGGCCCAgagCUGGgcu-AGGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 110867 0.66 0.740121
Target:  5'- ----aGGGUUugcgCGAUCCGGUCCCGGc -3'
miRNA:   3'- agaggCCCAGa---GCUGGGCUAGGGCUu -5'
3011 3' -59.5 NC_001493.1 + 110354 0.66 0.729565
Target:  5'- aCUCCGGGcgcgggCUCGACCuucaggucaguguCGAagcccaUCCCGGg -3'
miRNA:   3'- aGAGGCCCa-----GAGCUGG-------------GCU------AGGGCUu -5'
3011 3' -59.5 NC_001493.1 + 82580 0.66 0.720855
Target:  5'- --gCUGGGcCUgGACCaCGAUCUCGAu -3'
miRNA:   3'- agaGGCCCaGAgCUGG-GCUAGGGCUu -5'
3011 3' -59.5 NC_001493.1 + 10672 0.66 0.720855
Target:  5'- cUCcCCGGG-UUCGAcaCCCGGagagUCCCGGAu -3'
miRNA:   3'- -AGaGGCCCaGAGCU--GGGCU----AGGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 126226 0.66 0.720855
Target:  5'- cUCcCCGGG-UUCGAcaCCCGGagagUCCCGGAu -3'
miRNA:   3'- -AGaGGCCCaGAGCU--GGGCU----AGGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 48142 0.66 0.720855
Target:  5'- gUCUCuCGGGUUgaagUCGACaCCcAUCCCGu- -3'
miRNA:   3'- -AGAG-GCCCAG----AGCUG-GGcUAGGGCuu -5'
3011 3' -59.5 NC_001493.1 + 59888 0.67 0.711108
Target:  5'- cUUCaCGGG-CUaccCGACCCcuauGAUCCCGAAa -3'
miRNA:   3'- aGAG-GCCCaGA---GCUGGG----CUAGGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 62411 0.67 0.711108
Target:  5'- --gUCGGGUugaaccCUCGGCgaaCGAUCCCGGAg -3'
miRNA:   3'- agaGGCCCA------GAGCUGg--GCUAGGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 62245 0.67 0.701297
Target:  5'- gCUCCGGGaucgUUCGccgaggguucaACCCGAcacgCCCGAGc -3'
miRNA:   3'- aGAGGCCCa---GAGC-----------UGGGCUa---GGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 103042 0.67 0.701297
Target:  5'- ---aUGGGUC-CGAaCCGGUCCCGAc -3'
miRNA:   3'- agagGCCCAGaGCUgGGCUAGGGCUu -5'
3011 3' -59.5 NC_001493.1 + 43453 0.67 0.701297
Target:  5'- aUCUCCGGGgggUCGAUcugcgcggCCGAUCUCGu- -3'
miRNA:   3'- -AGAGGCCCag-AGCUG--------GGCUAGGGCuu -5'
3011 3' -59.5 NC_001493.1 + 107606 0.68 0.620486
Target:  5'- aCUCCGaaGGUUggcggcgUUGACaCCGGUCCCGGGg -3'
miRNA:   3'- aGAGGC--CCAG-------AGCUG-GGCUAGGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 110617 0.68 0.601462
Target:  5'- cUCUCCuuuaccgugacGGGUCaUCGACCCGAggugcucgCCgCGAu -3'
miRNA:   3'- -AGAGG-----------CCCAG-AGCUGGGCUa-------GG-GCUu -5'
3011 3' -59.5 NC_001493.1 + 65048 0.69 0.581522
Target:  5'- -gUCCGuGGuggacuucuaUCUCGACCCGAaCCUGAu -3'
miRNA:   3'- agAGGC-CC----------AGAGCUGGGCUaGGGCUu -5'
3011 3' -59.5 NC_001493.1 + 126858 0.69 0.542107
Target:  5'- cCUCgGgGGUCaUCGAgcCCUGGUCCCGGGa -3'
miRNA:   3'- aGAGgC-CCAG-AGCU--GGGCUAGGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 11304 0.69 0.542107
Target:  5'- cCUCgGgGGUCaUCGAgcCCUGGUCCCGGGa -3'
miRNA:   3'- aGAGgC-CCAG-AGCU--GGGCUAGGGCUU- -5'
3011 3' -59.5 NC_001493.1 + 22182 0.7 0.522727
Target:  5'- aCUCUGGGgcaccugCUaaccCGAUCCGAUCCCGu- -3'
miRNA:   3'- aGAGGCCCa------GA----GCUGGGCUAGGGCuu -5'
3011 3' -59.5 NC_001493.1 + 32619 0.7 0.507417
Target:  5'- -gUCCGGGgccauauccgcgCGugCCGAUCCCGGu -3'
miRNA:   3'- agAGGCCCaga---------GCugGGCUAGGGCUu -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.