miRNA display CGI


Results 1 - 20 of 204 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
13999 3' -55.5 NC_003521.1 + 240642 0.66 0.963721
Target:  5'- cGCGGGcgugcaGGGaGGCcgaAGcGGCGGCcGGAGCc -3'
miRNA:   3'- -CGCUC------UCC-CCG---UCaUCGUCGuUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 240578 0.66 0.956731
Target:  5'- gGgGuGGGGGGguGUuuuuGGCGG-GGGGGCa -3'
miRNA:   3'- -CgCuCUCCCCguCA----UCGUCgUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 240453 0.67 0.925285
Target:  5'- cGUGAGGcGGGCAGcGGUcGCAGGcGCc -3'
miRNA:   3'- -CGCUCUcCCCGUCaUCGuCGUUCuCG- -5'
13999 3' -55.5 NC_003521.1 + 239743 0.67 0.935407
Target:  5'- aCGAuccAGGGGUcgc-GCGGCGAGAGCu -3'
miRNA:   3'- cGCUc--UCCCCGucauCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 238775 0.69 0.889436
Target:  5'- -aGAGGuGGGGacacggcacaGGUAGCAGCGgacgaguuguGGGGCg -3'
miRNA:   3'- cgCUCU-CCCCg---------UCAUCGUCGU----------UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 238529 0.67 0.939662
Target:  5'- uGCGAGAGcucgucggccagcGGGUAGaGGUGGCcguccuGGGGGCa -3'
miRNA:   3'- -CGCUCUC-------------CCCGUCaUCGUCG------UUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 238469 0.69 0.853568
Target:  5'- gGCGGGcGGGGCGGagacGCGGCccAGGGUc -3'
miRNA:   3'- -CGCUCuCCCCGUCau--CGUCGu-UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 236167 0.66 0.966594
Target:  5'- gGCGGGAccuagcggacgauGGGuGgGGUGGCAGgAaagccgacGGAGCg -3'
miRNA:   3'- -CGCUCU-------------CCC-CgUCAUCGUCgU--------UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 234123 0.74 0.615242
Target:  5'- gGCGAGAcccagcagcgcucgcGGGcGCAGgcccuGCAGCAcGAGCg -3'
miRNA:   3'- -CGCUCU---------------CCC-CGUCau---CGUCGUuCUCG- -5'
13999 3' -55.5 NC_003521.1 + 232548 0.68 0.914244
Target:  5'- gGCGAGguggccuacuacGGGGGCugcuguGUGGUgAGCGGGGGg -3'
miRNA:   3'- -CGCUC------------UCCCCGu-----CAUCG-UCGUUCUCg -5'
13999 3' -55.5 NC_003521.1 + 232343 0.72 0.740046
Target:  5'- ---cGAGGaGCAGUAGCAGCAGucGCg -3'
miRNA:   3'- cgcuCUCCcCGUCAUCGUCGUUcuCG- -5'
13999 3' -55.5 NC_003521.1 + 228986 0.73 0.681364
Target:  5'- cGCGGGcGGcGCAGgaccGGCAGCAcGGAGCu -3'
miRNA:   3'- -CGCUCuCCcCGUCa---UCGUCGU-UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 226879 0.67 0.944611
Target:  5'- aGCGAGggcagcugcGGGGGCAccacGGCGGCcAGcGCg -3'
miRNA:   3'- -CGCUC---------UCCCCGUca--UCGUCGuUCuCG- -5'
13999 3' -55.5 NC_003521.1 + 223208 0.7 0.84263
Target:  5'- cGCGucGGGGucguauugacGCAGguagagccccugcAGCAGCGAGAGCg -3'
miRNA:   3'- -CGCucUCCC----------CGUCa------------UCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 223110 0.68 0.902289
Target:  5'- uGCGGGAuGGcGGCcGUcucgcGCAGCAccaGGAGCc -3'
miRNA:   3'- -CGCUCU-CC-CCGuCAu----CGUCGU---UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 218705 0.68 0.895973
Target:  5'- gGCG-GAGGagacGGCGGcGGCGGCGGGcgagaAGCg -3'
miRNA:   3'- -CGCuCUCC----CCGUCaUCGUCGUUC-----UCG- -5'
13999 3' -55.5 NC_003521.1 + 216904 0.82 0.24741
Target:  5'- gGUGAgGAGGGcGCGGUGGCAGCGGaGGCg -3'
miRNA:   3'- -CGCU-CUCCC-CGUCAUCGUCGUUcUCG- -5'
13999 3' -55.5 NC_003521.1 + 216248 0.72 0.730441
Target:  5'- aGCGGGAGGuggacgaggaGGCcgccgAGUAGUAGCGccagcucguGGAGCg -3'
miRNA:   3'- -CGCUCUCC----------CCG-----UCAUCGUCGU---------UCUCG- -5'
13999 3' -55.5 NC_003521.1 + 215634 0.77 0.465066
Target:  5'- gGUGAGGacGGGGCuccgcauGGUcGCGGCGGGAGCa -3'
miRNA:   3'- -CGCUCU--CCCCG-------UCAuCGUCGUUCUCG- -5'
13999 3' -55.5 NC_003521.1 + 214556 0.77 0.456882
Target:  5'- aGCaccGGGGuGCAGUgAGCAGCAGGGGCg -3'
miRNA:   3'- -CGcucUCCC-CGUCA-UCGUCGUUCUCG- -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.