miRNA display CGI


Results 1 - 20 of 24 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
12436 5' -62.2 NC_003324.1 + 29496 0.66 0.374206
Target:  5'- -uUCCCGGCGCGCauCGagaccuauUUGAGgACGGUa -3'
miRNA:   3'- acGGGGCCGCGCG--GC--------AACUCgUGCUA- -5'
12436 5' -62.2 NC_003324.1 + 14662 0.66 0.374206
Target:  5'- cGCCgCCGGCcgcuuGCGCCGgcaGGcCGCGAc -3'
miRNA:   3'- aCGG-GGCCG-----CGCGGCaacUC-GUGCUa -5'
12436 5' -62.2 NC_003324.1 + 38395 0.66 0.374206
Target:  5'- gGCCgaacacguauCCGGUGCGCUGgaacUGAGcCAUGAc -3'
miRNA:   3'- aCGG----------GGCCGCGCGGCa---ACUC-GUGCUa -5'
12436 5' -62.2 NC_003324.1 + 21596 0.66 0.356744
Target:  5'- cGCCgUGGCG-GCCGUccgaccuUGAGCaacGCGAc -3'
miRNA:   3'- aCGGgGCCGCgCGGCA-------ACUCG---UGCUa -5'
12436 5' -62.2 NC_003324.1 + 23539 0.67 0.325858
Target:  5'- gUGCCCCacaGCGUGgCGgcGGGCGCGc- -3'
miRNA:   3'- -ACGGGGc--CGCGCgGCaaCUCGUGCua -5'
12436 5' -62.2 NC_003324.1 + 23754 0.67 0.310806
Target:  5'- aG-CCCGGCGCGCCGUgGAuaccgGCGAa -3'
miRNA:   3'- aCgGGGCCGCGCGGCAaCUcg---UGCUa -5'
12436 5' -62.2 NC_003324.1 + 23171 0.67 0.310806
Target:  5'- cGCCCaCGGUaugGUCGgcGAGCGCGGUa -3'
miRNA:   3'- aCGGG-GCCGcg-CGGCaaCUCGUGCUA- -5'
12436 5' -62.2 NC_003324.1 + 5426 0.67 0.303481
Target:  5'- aGCgUCGGgGCGCCGUUG-GUGuCGAg -3'
miRNA:   3'- aCGgGGCCgCGCGGCAACuCGU-GCUa -5'
12436 5' -62.2 NC_003324.1 + 4356 0.67 0.303481
Target:  5'- uUGCCaCCGGCGgaaaCGCCGU--GGCGCa-- -3'
miRNA:   3'- -ACGG-GGCCGC----GCGGCAacUCGUGcua -5'
12436 5' -62.2 NC_003324.1 + 28935 0.68 0.282305
Target:  5'- cUGCUuuGGCGUGCCGccuggcgcugcUUGAGCAa--- -3'
miRNA:   3'- -ACGGggCCGCGCGGC-----------AACUCGUgcua -5'
12436 5' -62.2 NC_003324.1 + 33354 0.68 0.275511
Target:  5'- cGUCCCGGUGCGUgGUUGccggcuccGCGCGc- -3'
miRNA:   3'- aCGGGGCCGCGCGgCAACu-------CGUGCua -5'
12436 5' -62.2 NC_003324.1 + 52752 0.68 0.268848
Target:  5'- cGCCuuGGUGC-CCGUgGGGCACu-- -3'
miRNA:   3'- aCGGggCCGCGcGGCAaCUCGUGcua -5'
12436 5' -62.2 NC_003324.1 + 12899 0.68 0.262316
Target:  5'- aGCCCCuugcGGCGCGUCGaaacGCugGAUg -3'
miRNA:   3'- aCGGGG----CCGCGCGGCaacuCGugCUA- -5'
12436 5' -62.2 NC_003324.1 + 50093 0.68 0.24964
Target:  5'- gGCCCCaGCGCuuGCCGaucuugUGGGCgGCGAUc -3'
miRNA:   3'- aCGGGGcCGCG--CGGCa-----ACUCG-UGCUA- -5'
12436 5' -62.2 NC_003324.1 + 17683 0.68 0.243494
Target:  5'- gUGCUCaaCGGCGCGCCG--GGGCACu-- -3'
miRNA:   3'- -ACGGG--GCCGCGCGGCaaCUCGUGcua -5'
12436 5' -62.2 NC_003324.1 + 13415 0.68 0.243494
Target:  5'- uUGgUCCGGCGCggcuGCCGUcGAGCACc-- -3'
miRNA:   3'- -ACgGGGCCGCG----CGGCAaCUCGUGcua -5'
12436 5' -62.2 NC_003324.1 + 21292 0.69 0.23158
Target:  5'- cGCCuUCGGCaGCucgaaagccagGCgGUUGAGCACGAUc -3'
miRNA:   3'- aCGG-GGCCG-CG-----------CGgCAACUCGUGCUA- -5'
12436 5' -62.2 NC_003324.1 + 17893 0.7 0.203935
Target:  5'- -aCCCCGaauGCGCGCCGUgaGGCACGc- -3'
miRNA:   3'- acGGGGC---CGCGCGGCAacUCGUGCua -5'
12436 5' -62.2 NC_003324.1 + 10289 0.71 0.17007
Target:  5'- uUGCgCCGGCaugauauugGCGCCGaUGAGCACu-- -3'
miRNA:   3'- -ACGgGGCCG---------CGCGGCaACUCGUGcua -5'
12436 5' -62.2 NC_003324.1 + 7404 0.71 0.160936
Target:  5'- gUGCCCuCGGCGCGCggaacgacggucaCGguguUGGGCugGAUc -3'
miRNA:   3'- -ACGGG-GCCGCGCG-------------GCa---ACUCGugCUA- -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.