miRNA display CGI


Results 1 - 20 of 28 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
14000 3' -50.7 NC_003521.1 + 157840 0.66 0.998718
Target:  5'- uGGCCAuuaUUGCU--UCGUCACGaGGg -3'
miRNA:   3'- cCCGGUua-AGCGAuuAGCAGUGC-CUa -5'
14000 3' -50.7 NC_003521.1 + 82276 0.66 0.998718
Target:  5'- aGGCgGGUaCGUUAAUCGUCAUaGAUc -3'
miRNA:   3'- cCCGgUUAaGCGAUUAGCAGUGcCUA- -5'
14000 3' -50.7 NC_003521.1 + 72432 0.66 0.998458
Target:  5'- aGGGCgAGUccUCGCcgucGUCGUCGCGa-- -3'
miRNA:   3'- -CCCGgUUA--AGCGau--UAGCAGUGCcua -5'
14000 3' -50.7 NC_003521.1 + 186976 0.66 0.998458
Target:  5'- cGGCCGAggaCGCc-GUCG-CGCGGAa -3'
miRNA:   3'- cCCGGUUaa-GCGauUAGCaGUGCCUa -5'
14000 3' -50.7 NC_003521.1 + 101627 0.66 0.998156
Target:  5'- aGGGCCcgg-CGCUGGUagcgCGUCACGu-- -3'
miRNA:   3'- -CCCGGuuaaGCGAUUA----GCAGUGCcua -5'
14000 3' -50.7 NC_003521.1 + 50530 0.67 0.997805
Target:  5'- uGGGCCGcgggGUUCGCggcaguAUCGcagGCGGAg -3'
miRNA:   3'- -CCCGGU----UAAGCGau----UAGCag-UGCCUa -5'
14000 3' -50.7 NC_003521.1 + 52391 0.67 0.9974
Target:  5'- -cGCCG--UCGCggccuucuUCGUCGCGGAg -3'
miRNA:   3'- ccCGGUuaAGCGauu-----AGCAGUGCCUa -5'
14000 3' -50.7 NC_003521.1 + 178942 0.67 0.9974
Target:  5'- cGGCaucugcUCGCUAuccguggugGUCGUCAUGGAc -3'
miRNA:   3'- cCCGguua--AGCGAU---------UAGCAGUGCCUa -5'
14000 3' -50.7 NC_003521.1 + 177793 0.67 0.996934
Target:  5'- gGGGCCuGUcCGCUGGUgggCGUCGUGGGc -3'
miRNA:   3'- -CCCGGuUAaGCGAUUA---GCAGUGCCUa -5'
14000 3' -50.7 NC_003521.1 + 35000 0.68 0.995034
Target:  5'- gGGGCCAGcgagCGCUug-CGUCgugcccgGCGGAc -3'
miRNA:   3'- -CCCGGUUaa--GCGAuuaGCAG-------UGCCUa -5'
14000 3' -50.7 NC_003521.1 + 196330 0.68 0.994332
Target:  5'- uGGGCCGGUUguugCGCUG--CGUCACguuGGAc -3'
miRNA:   3'- -CCCGGUUAA----GCGAUuaGCAGUG---CCUa -5'
14000 3' -50.7 NC_003521.1 + 36788 0.68 0.994332
Target:  5'- aGGGCCAcg-CGCUGcggagcCGcUCGCGGAc -3'
miRNA:   3'- -CCCGGUuaaGCGAUua----GC-AGUGCCUa -5'
14000 3' -50.7 NC_003521.1 + 184131 0.68 0.99346
Target:  5'- cGGCCGAgacggcgUGUUGAUCGUgCAUGGGc -3'
miRNA:   3'- cCCGGUUaa-----GCGAUUAGCA-GUGCCUa -5'
14000 3' -50.7 NC_003521.1 + 142230 0.68 0.99346
Target:  5'- uGGCCucgUCGCUGcgC-UCGCGGGc -3'
miRNA:   3'- cCCGGuuaAGCGAUuaGcAGUGCCUa -5'
14000 3' -50.7 NC_003521.1 + 196468 0.68 0.991394
Target:  5'- uGGGCCGcagccccaGCg---CGUCGCGGAUg -3'
miRNA:   3'- -CCCGGUuaag----CGauuaGCAGUGCCUA- -5'
14000 3' -50.7 NC_003521.1 + 223466 0.69 0.990183
Target:  5'- uGGGCCGccgCGCcgg-CGUCACGGc- -3'
miRNA:   3'- -CCCGGUuaaGCGauuaGCAGUGCCua -5'
14000 3' -50.7 NC_003521.1 + 180849 0.69 0.990183
Target:  5'- -aGCCGGUa-GCUGA-CGUCGCGGAUu -3'
miRNA:   3'- ccCGGUUAagCGAUUaGCAGUGCCUA- -5'
14000 3' -50.7 NC_003521.1 + 225631 0.7 0.978547
Target:  5'- -cGCCGAUUCGuCUAAcuuucccuuggaauuUCGUgGCGGAUa -3'
miRNA:   3'- ccCGGUUAAGC-GAUU---------------AGCAgUGCCUA- -5'
14000 3' -50.7 NC_003521.1 + 95170 0.7 0.972448
Target:  5'- cGGGCCGAgggcaccUCGCgc-UCGgCGCGGAa -3'
miRNA:   3'- -CCCGGUUa------AGCGauuAGCaGUGCCUa -5'
14000 3' -50.7 NC_003521.1 + 71072 0.72 0.943269
Target:  5'- uGGGCCGAcgUUGCUGAUCGuagUCGCGu-- -3'
miRNA:   3'- -CCCGGUUa-AGCGAUUAGC---AGUGCcua -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.