miRNA display CGI


Results 1 - 20 of 55 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
23404 5' -65.1 NC_005259.1 + 13393 0.66 0.342398
Target:  5'- cGACCCaCGCauuCGCuCGGccuucCUGGCCGgGg -3'
miRNA:   3'- aCUGGG-GCGg--GCG-GCCa----GACCGGUgC- -5'
23404 5' -65.1 NC_005259.1 + 45000 0.66 0.342398
Target:  5'- aGGCaCCGCcgaCCGCCGG---GGCCGCGc -3'
miRNA:   3'- aCUGgGGCG---GGCGGCCagaCCGGUGC- -5'
23404 5' -65.1 NC_005259.1 + 37447 0.66 0.334873
Target:  5'- gGACauaCCauugGCCCGaUUGG-CUGGCCACGc -3'
miRNA:   3'- aCUGg--GG----CGGGC-GGCCaGACCGGUGC- -5'
23404 5' -65.1 NC_005259.1 + 29990 0.66 0.334873
Target:  5'- gGACCCCGCaCGgUGGUCa--CCACGa -3'
miRNA:   3'- aCUGGGGCGgGCgGCCAGaccGGUGC- -5'
23404 5' -65.1 NC_005259.1 + 36695 0.66 0.334873
Target:  5'- cGuCCUCGCCCGCCGaugagCUcGuGCCGCu -3'
miRNA:   3'- aCuGGGGCGGGCGGCca---GA-C-CGGUGc -5'
23404 5' -65.1 NC_005259.1 + 35505 0.66 0.334873
Target:  5'- uUGGCCCCGUugCCGCCGccgCcGGgCACa -3'
miRNA:   3'- -ACUGGGGCG--GGCGGCca-GaCCgGUGc -5'
23404 5' -65.1 NC_005259.1 + 9060 0.66 0.32747
Target:  5'- ---aCCgGCUCGgUGGUCaUGGCCACa -3'
miRNA:   3'- acugGGgCGGGCgGCCAG-ACCGGUGc -5'
23404 5' -65.1 NC_005259.1 + 22450 0.66 0.326737
Target:  5'- cGACUCuggcuaccucgugCGCCCGCgCGGUCUGaccguCCGCa -3'
miRNA:   3'- aCUGGG-------------GCGGGCG-GCCAGACc----GGUGc -5'
23404 5' -65.1 NC_005259.1 + 44470 0.66 0.320189
Target:  5'- -uGCCgCCGCCCugGCCGGgccagUUGGUgACGu -3'
miRNA:   3'- acUGG-GGCGGG--CGGCCa----GACCGgUGC- -5'
23404 5' -65.1 NC_005259.1 + 42213 0.66 0.320189
Target:  5'- gGAUgCCCGCCgCGCCGccGUCcccGGCCAUc -3'
miRNA:   3'- aCUG-GGGCGG-GCGGC--CAGa--CCGGUGc -5'
23404 5' -65.1 NC_005259.1 + 36850 0.66 0.320189
Target:  5'- cUGACgCCGCCCGCUGcGccguugCUGGCaccgccCGCGc -3'
miRNA:   3'- -ACUGgGGCGGGCGGC-Ca-----GACCG------GUGC- -5'
23404 5' -65.1 NC_005259.1 + 31734 0.66 0.31303
Target:  5'- gUGACCgCGCCUGCCGcGagcgCUGGuguccCCACc -3'
miRNA:   3'- -ACUGGgGCGGGCGGC-Ca---GACC-----GGUGc -5'
23404 5' -65.1 NC_005259.1 + 46322 0.66 0.310905
Target:  5'- cGGCCCCgagggucgcgucgcGCaCCGCUuguaGGUUcugGGCCGCGa -3'
miRNA:   3'- aCUGGGG--------------CG-GGCGG----CCAGa--CCGGUGC- -5'
23404 5' -65.1 NC_005259.1 + 17219 0.66 0.310905
Target:  5'- gGACUgggcgcgagucaaaUCGCCaGCCGGUCucacgcUGGCCACc -3'
miRNA:   3'- aCUGG--------------GGCGGgCGGCCAG------ACCGGUGc -5'
23404 5' -65.1 NC_005259.1 + 7673 0.66 0.299077
Target:  5'- -cGCCCCGCCuCGUgGGg-UGGCC-CGu -3'
miRNA:   3'- acUGGGGCGG-GCGgCCagACCGGuGC- -5'
23404 5' -65.1 NC_005259.1 + 19865 0.67 0.28561
Target:  5'- -cGCUCgCGCCCGCCGGgaUCgccgacGCCGCGc -3'
miRNA:   3'- acUGGG-GCGGGCGGCC--AGac----CGGUGC- -5'
23404 5' -65.1 NC_005259.1 + 35825 0.67 0.28561
Target:  5'- cGACCCCGCauagccgccaCCGCCcgcgagcacaGGUCcgccGCCGCGu -3'
miRNA:   3'- aCUGGGGCG----------GGCGG----------CCAGac--CGGUGC- -5'
23404 5' -65.1 NC_005259.1 + 46933 0.67 0.28495
Target:  5'- cGAgCuuGCCCGCCGcgccgccgaccgcGUUgagcuuguUGGCCACGc -3'
miRNA:   3'- aCUgGggCGGGCGGC-------------CAG--------ACCGGUGC- -5'
23404 5' -65.1 NC_005259.1 + 33534 0.67 0.279058
Target:  5'- cGACCCaCGCCUGCUGaucGUCgccGGUCAgGa -3'
miRNA:   3'- aCUGGG-GCGGGCGGC---CAGa--CCGGUgC- -5'
23404 5' -65.1 NC_005259.1 + 33313 0.67 0.279058
Target:  5'- cGAUCCCG-CCGUCGG-C-GGUCACGc -3'
miRNA:   3'- aCUGGGGCgGGCGGCCaGaCCGGUGC- -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.