miRNA display CGI


Results 1 - 20 of 30 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
23062 3' -58.6 NC_005178.1 + 9505 0.66 0.442069
Target:  5'- cCGGCAGaCcGUCC-CGGcuaGGCCGGg- -3'
miRNA:   3'- -GCCGUC-GaUAGGuGCCag-CCGGUCag -5'
23062 3' -58.6 NC_005178.1 + 4996 0.66 0.439125
Target:  5'- gCGGCcGCUGgcggCCAguuccucggcgaucUGGUCGGCCAu-- -3'
miRNA:   3'- -GCCGuCGAUa---GGU--------------GCCAGCCGGUcag -5'
23062 3' -58.6 NC_005178.1 + 3939 0.66 0.439125
Target:  5'- gCGGCGGCcggUGUUCgggucaacgaugcGCGGcaagcugcugugCGGCCGGUCg -3'
miRNA:   3'- -GCCGUCG---AUAGG-------------UGCCa-----------GCCGGUCAG- -5'
23062 3' -58.6 NC_005178.1 + 7849 0.66 0.4323
Target:  5'- uCGGuCAGCUcggCACGGUUGGCCucgCa -3'
miRNA:   3'- -GCC-GUCGAuagGUGCCAGCCGGucaG- -5'
23062 3' -58.6 NC_005178.1 + 12858 0.66 0.422659
Target:  5'- uGGCGGCcgcgaccUCCAgGGaCuGCCGGUCg -3'
miRNA:   3'- gCCGUCGau-----AGGUgCCaGcCGGUCAG- -5'
23062 3' -58.6 NC_005178.1 + 7753 0.66 0.413148
Target:  5'- uGGCGGUccUCCAgGG-CGGaguCCAGUCc -3'
miRNA:   3'- gCCGUCGauAGGUgCCaGCC---GGUCAG- -5'
23062 3' -58.6 NC_005178.1 + 35108 0.66 0.413148
Target:  5'- -cGCcgAGCUG-CCGCuGG-CGGCCGGUCc -3'
miRNA:   3'- gcCG--UCGAUaGGUG-CCaGCCGGUCAG- -5'
23062 3' -58.6 NC_005178.1 + 32657 0.67 0.385424
Target:  5'- -aGCAGCgcgaCAUcgaGGUCGGCCGGUg -3'
miRNA:   3'- gcCGUCGauagGUG---CCAGCCGGUCAg -5'
23062 3' -58.6 NC_005178.1 + 3038 0.67 0.385424
Target:  5'- uCGGCAgGCcAUCCGCGcUCGGgCGGcCg -3'
miRNA:   3'- -GCCGU-CGaUAGGUGCcAGCCgGUCaG- -5'
23062 3' -58.6 NC_005178.1 + 3095 0.67 0.37646
Target:  5'- uCGGCaccagGGCg--CCACGcUCGGCCuGGUCc -3'
miRNA:   3'- -GCCG-----UCGauaGGUGCcAGCCGG-UCAG- -5'
23062 3' -58.6 NC_005178.1 + 29230 0.67 0.358958
Target:  5'- aGuCAGCacgAUCUACGaGUCGGCCGG-Cg -3'
miRNA:   3'- gCcGUCGa--UAGGUGC-CAGCCGGUCaG- -5'
23062 3' -58.6 NC_005178.1 + 36916 0.67 0.358958
Target:  5'- gCGGCuauGGCUGUCCcgcuuucuuCGGggGGCUAGUUg -3'
miRNA:   3'- -GCCG---UCGAUAGGu--------GCCagCCGGUCAG- -5'
23062 3' -58.6 NC_005178.1 + 21634 0.67 0.358958
Target:  5'- uCGGCGGCUcagcUCC-CGGaCGaGCUGGUCu -3'
miRNA:   3'- -GCCGUCGAu---AGGuGCCaGC-CGGUCAG- -5'
23062 3' -58.6 NC_005178.1 + 33549 0.67 0.35382
Target:  5'- uGGCAGUagcccugucgagugGUCCA-GGUCGGCaCGGUg -3'
miRNA:   3'- gCCGUCGa-------------UAGGUgCCAGCCG-GUCAg -5'
23062 3' -58.6 NC_005178.1 + 30161 0.67 0.342033
Target:  5'- uGGCgucGGCUAU--ACGGgCGGCCAGUa -3'
miRNA:   3'- gCCG---UCGAUAggUGCCaGCCGGUCAg -5'
23062 3' -58.6 NC_005178.1 + 5555 0.68 0.333789
Target:  5'- gGGCGGCUAcgucgaggcgaUCCGCGGauucaagcgCGGCgaagaGGUCg -3'
miRNA:   3'- gCCGUCGAU-----------AGGUGCCa--------GCCGg----UCAG- -5'
23062 3' -58.6 NC_005178.1 + 34494 0.68 0.333789
Target:  5'- uGGCucGGCg--CCAgggaGGUCGaGCCGGUCu -3'
miRNA:   3'- gCCG--UCGauaGGUg---CCAGC-CGGUCAG- -5'
23062 3' -58.6 NC_005178.1 + 26620 0.68 0.317741
Target:  5'- gGGCGGCUAUCUGCucguaaaccgaGG-CGGUCAGg- -3'
miRNA:   3'- gCCGUCGAUAGGUG-----------CCaGCCGGUCag -5'
23062 3' -58.6 NC_005178.1 + 31957 0.68 0.317741
Target:  5'- cCGGCAGCgccAUCC-CGG-CGacGUCGGUCa -3'
miRNA:   3'- -GCCGUCGa--UAGGuGCCaGC--CGGUCAG- -5'
23062 3' -58.6 NC_005178.1 + 16635 0.68 0.316169
Target:  5'- gGGCGGUaaugacguugCCAUGG-CGGCCAgGUCg -3'
miRNA:   3'- gCCGUCGaua-------GGUGCCaGCCGGU-CAG- -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.