miRNA display CGI


Results 1 - 20 of 29 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
10579 3' -59.9 NC_002687.1 + 159198 0.66 0.916306
Target:  5'- gGCCGCCGCcuccgGGCUUUCgaccgGCggCGACGGc -3'
miRNA:   3'- -UGGCGGCG-----CUGAGGGa----CGa-GUUGCCu -5'
10579 3' -59.9 NC_002687.1 + 18584 0.66 0.910861
Target:  5'- cGCCgguGCUGCGACggugucgUCCUGCUguguugaAACGGAa -3'
miRNA:   3'- -UGG---CGGCGCUGa------GGGACGAg------UUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 255166 0.66 0.910861
Target:  5'- gGCCGCCGCGuugaUCCUGCgagCGAgGcGAa -3'
miRNA:   3'- -UGGCGGCGCuga-GGGACGa--GUUgC-CU- -5'
10579 3' -59.9 NC_002687.1 + 18119 0.67 0.880644
Target:  5'- aGCCGCUGCGGCUgCaacGCUUAGCa-- -3'
miRNA:   3'- -UGGCGGCGCUGAgGga-CGAGUUGccu -5'
10579 3' -59.9 NC_002687.1 + 60250 0.67 0.87402
Target:  5'- uUUGCCGCGACauccugcgacgaUCCCU-CUCAGCGa- -3'
miRNA:   3'- uGGCGGCGCUG------------AGGGAcGAGUUGCcu -5'
10579 3' -59.9 NC_002687.1 + 238183 0.67 0.869957
Target:  5'- aACCGCCGCaGCUUUCUGCgcaagauguuacaGugGGAc -3'
miRNA:   3'- -UGGCGGCGcUGAGGGACGag-----------UugCCU- -5'
10579 3' -59.9 NC_002687.1 + 214917 0.67 0.859512
Target:  5'- cCCGCUGCaccccggccGAuauuuccucgaucCUCCCUGCcgaUCGGCGGAg -3'
miRNA:   3'- uGGCGGCG---------CU-------------GAGGGACG---AGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 199936 0.67 0.850872
Target:  5'- gUCGCCagagcucggaaaagGUGugUCgUCUGCUCGGCGGGg -3'
miRNA:   3'- uGGCGG--------------CGCugAG-GGACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 296381 0.68 0.814766
Target:  5'- cACCGCgccuUGCagGACUCCggUGCUCGAUGGAc -3'
miRNA:   3'- -UGGCG----GCG--CUGAGGg-ACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 254984 0.68 0.814766
Target:  5'- gAUCGUCG-GAgUCCCUGUcgaagucuUCGGCGGAa -3'
miRNA:   3'- -UGGCGGCgCUgAGGGACG--------AGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 66620 0.68 0.814766
Target:  5'- gACCGCCaUGGCccCCCUGUaCGACGGu -3'
miRNA:   3'- -UGGCGGcGCUGa-GGGACGaGUUGCCu -5'
10579 3' -59.9 NC_002687.1 + 316178 0.68 0.806657
Target:  5'- uGCgGCgGCGGCaCCCgGCgCGGCGGAa -3'
miRNA:   3'- -UGgCGgCGCUGaGGGaCGaGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 253760 0.69 0.781547
Target:  5'- gACCGCCGUu-CUCCCUGC-CGGCc-- -3'
miRNA:   3'- -UGGCGGCGcuGAGGGACGaGUUGccu -5'
10579 3' -59.9 NC_002687.1 + 12530 0.69 0.772938
Target:  5'- uGCCGCUGCuGCUCCUucUGCcgaGAUGGAg -3'
miRNA:   3'- -UGGCGGCGcUGAGGG--ACGag-UUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 11857 0.69 0.772938
Target:  5'- aGCCGCCGCuGCUacgaccgcuacCCCUGCUaCAACa-- -3'
miRNA:   3'- -UGGCGGCGcUGA-----------GGGACGA-GUUGccu -5'
10579 3' -59.9 NC_002687.1 + 9017 0.69 0.761587
Target:  5'- cCCGCUGCGGgcauguggauuauuCUCCCUGUUCccccCGGGa -3'
miRNA:   3'- uGGCGGCGCU--------------GAGGGACGAGuu--GCCU- -5'
10579 3' -59.9 NC_002687.1 + 221393 0.69 0.746495
Target:  5'- cACUGCgGUG-CUaCCCauuUGCUCAACGGGg -3'
miRNA:   3'- -UGGCGgCGCuGA-GGG---ACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 195802 0.69 0.746495
Target:  5'- cACUGCgGUG-CUaCCCauuUGCUCAACGGGg -3'
miRNA:   3'- -UGGCGgCGCuGA-GGG---ACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 19967 0.69 0.746495
Target:  5'- cACUGCgGUG-CUaCCCauuUGCUCAACGGGg -3'
miRNA:   3'- -UGGCGgCGCuGA-GGG---ACGAGUUGCCU- -5'
10579 3' -59.9 NC_002687.1 + 79922 0.7 0.737499
Target:  5'- cGCUaCCG-GAgUCCCUGCUgAACGGGa -3'
miRNA:   3'- -UGGcGGCgCUgAGGGACGAgUUGCCU- -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.