miRNA display CGI


Results 21 - 37 of 37 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
8544 3' -53.9 NC_002169.1 + 115927 0.69 0.847875
Target:  5'- cGCGCGGCaaGCGAGACGgcCGCGacauaUUCg -3'
miRNA:   3'- -UGCGCUGg-CGCUUUGCauGUGCg----AGG- -5'
8544 3' -53.9 NC_002169.1 + 57033 0.7 0.831422
Target:  5'- uUGaCGACauuggaaGCGGGACGUGCGCGCa-- -3'
miRNA:   3'- uGC-GCUGg------CGCUUUGCAUGUGCGagg -5'
8544 3' -53.9 NC_002169.1 + 124273 0.7 0.813357
Target:  5'- uCGCGAugaugccCCGCGAcacgAACGUGacgGCGCUCUu -3'
miRNA:   3'- uGCGCU-------GGCGCU----UUGCAUg--UGCGAGG- -5'
8544 3' -53.9 NC_002169.1 + 101720 0.7 0.805384
Target:  5'- aACGCGGCCuCGGuuCGcgGCACGCUa- -3'
miRNA:   3'- -UGCGCUGGcGCUuuGCa-UGUGCGAgg -5'
8544 3' -53.9 NC_002169.1 + 129804 0.7 0.805384
Target:  5'- gACGCGACCacaaugGCGAcaaugucgcGCGU-CGCGCUUCg -3'
miRNA:   3'- -UGCGCUGG------CGCUu--------UGCAuGUGCGAGG- -5'
8544 3' -53.9 NC_002169.1 + 29288 0.71 0.787214
Target:  5'- uUGCGAgCGCacuuACGagcGCACGCUCCa -3'
miRNA:   3'- uGCGCUgGCGcuu-UGCa--UGUGCGAGG- -5'
8544 3' -53.9 NC_002169.1 + 73140 0.72 0.719643
Target:  5'- uUGUGAgCGUGAcaaaGACGUGCACGgaCCu -3'
miRNA:   3'- uGCGCUgGCGCU----UUGCAUGUGCgaGG- -5'
8544 3' -53.9 NC_002169.1 + 60969 0.72 0.718643
Target:  5'- uGCGCGACaaCGAucuagAACGUuugcuguGCAUGCUCCg -3'
miRNA:   3'- -UGCGCUGgcGCU-----UUGCA-------UGUGCGAGG- -5'
8544 3' -53.9 NC_002169.1 + 15429 0.72 0.70961
Target:  5'- uGCGCGACaguuucuGCGAAuUGUGCACGUUUg -3'
miRNA:   3'- -UGCGCUGg------CGCUUuGCAUGUGCGAGg -5'
8544 3' -53.9 NC_002169.1 + 30989 0.73 0.688334
Target:  5'- uCGCGACCGCGAAAccaugaucgaucuCGUGCugAgGCUgCCg -3'
miRNA:   3'- uGCGCUGGCGCUUU-------------GCAUG--UgCGA-GG- -5'
8544 3' -53.9 NC_002169.1 + 78016 0.73 0.668902
Target:  5'- gACGCGACCuCGAAuACGUGCGUGCcgaUCCc -3'
miRNA:   3'- -UGCGCUGGcGCUU-UGCAUGUGCG---AGG- -5'
8544 3' -53.9 NC_002169.1 + 59559 0.74 0.638019
Target:  5'- uCGCGAUCGUu--ACGUACGCGUUCg -3'
miRNA:   3'- uGCGCUGGCGcuuUGCAUGUGCGAGg -5'
8544 3' -53.9 NC_002169.1 + 77765 0.74 0.616363
Target:  5'- cGCGCGGCaCGCGAuggugcagcaccAACGagucaauUAgACGCUCCg -3'
miRNA:   3'- -UGCGCUG-GCGCU------------UUGC-------AUgUGCGAGG- -5'
8544 3' -53.9 NC_002169.1 + 32374 0.74 0.596813
Target:  5'- cCGCGGCUGCGgcGCGUAC-CGUugaauuUCCg -3'
miRNA:   3'- uGCGCUGGCGCuuUGCAUGuGCG------AGG- -5'
8544 3' -53.9 NC_002169.1 + 43590 0.74 0.595786
Target:  5'- uGCGCGA-CGUGAAGagcauucUGUACGCGCUCg -3'
miRNA:   3'- -UGCGCUgGCGCUUU-------GCAUGUGCGAGg -5'
8544 3' -53.9 NC_002169.1 + 35962 0.76 0.51608
Target:  5'- -aGUGACUGCGAAACGUGuuuCGCGUaacgUCCa -3'
miRNA:   3'- ugCGCUGGCGCUUUGCAU---GUGCG----AGG- -5'
8544 3' -53.9 NC_002169.1 + 22064 1.12 0.003235
Target:  5'- aACGCGACCGCGAAACGUACACGCUCCu -3'
miRNA:   3'- -UGCGCUGGCGCUUUGCAUGUGCGAGG- -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.