miRNA display CGI


Results 1 - 20 of 35 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
11540 3' -59.3 NC_003085.1 + 725 0.73 0.164224
Target:  5'- aCGUCcGGGCgGUgCU-CGAGCGCCUCg -3'
miRNA:   3'- gGCAGcUCCGgUA-GAcGCUCGCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 947 0.67 0.402323
Target:  5'- uCCGUCauccacaCCGUCUGCgGAGUGCCUUc -3'
miRNA:   3'- -GGCAGcucc---GGUAGACG-CUCGCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 2476 0.67 0.393381
Target:  5'- aCGcauagUGuGGCCAUCaGCGcGGCGCUUCa -3'
miRNA:   3'- gGCa----GCuCCGGUAGaCGC-UCGCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 3416 0.7 0.255542
Target:  5'- gCGUCGGGGagcguCGUCUGUGcggcgaccAGCGCCUg -3'
miRNA:   3'- gGCAGCUCCg----GUAGACGC--------UCGCGGAg -5'
11540 3' -59.3 NC_003085.1 + 3510 0.66 0.468355
Target:  5'- gCCGUCu-GG-CGUCUcGCGAGCGUCa- -3'
miRNA:   3'- -GGCAGcuCCgGUAGA-CGCUCGCGGag -5'
11540 3' -59.3 NC_003085.1 + 4919 0.67 0.396943
Target:  5'- aCGUgGAGGCCAUCgUcgaaagagucguccgGCGGGUGCUg- -3'
miRNA:   3'- gGCAgCUCCGGUAG-A---------------CGCUCGCGGag -5'
11540 3' -59.3 NC_003085.1 + 5389 0.72 0.21873
Target:  5'- aCCGUCGAGGCCuacgCcGCcaaguggauggagGGGCGCgUCa -3'
miRNA:   3'- -GGCAGCUCCGGua--GaCG-------------CUCGCGgAG- -5'
11540 3' -59.3 NC_003085.1 + 13462 0.7 0.289383
Target:  5'- aCGUCGcGGUCAUC-GCGGcGCGgCUCg -3'
miRNA:   3'- gGCAGCuCCGGUAGaCGCU-CGCgGAG- -5'
11540 3' -59.3 NC_003085.1 + 13728 0.67 0.411394
Target:  5'- uCCGUCGAGGUCAc--GCGAaGcCGCC-Ca -3'
miRNA:   3'- -GGCAGCUCCGGUagaCGCU-C-GCGGaG- -5'
11540 3' -59.3 NC_003085.1 + 14061 1.11 0.000262
Target:  5'- uCCGUCGAGGCCAUCUGCGAGCGCCUCg -3'
miRNA:   3'- -GGCAGCUCCGGUAGACGCUCGCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 14430 0.66 0.492252
Target:  5'- uCCG-CGAgggcuggcccucuacGGCUAUC-GuCGAGCGCUUCg -3'
miRNA:   3'- -GGCaGCU---------------CCGGUAGaC-GCUCGCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 14816 0.74 0.159886
Target:  5'- uCCG-CGAGGCCAUCgcggaGUGGuGCGCCa- -3'
miRNA:   3'- -GGCaGCUCCGGUAGa----CGCU-CGCGGag -5'
11540 3' -59.3 NC_003085.1 + 16885 0.66 0.468355
Target:  5'- aCGUUGAcGaCCGUCUGCG-G-GCCUCc -3'
miRNA:   3'- gGCAGCUcC-GGUAGACGCuCgCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 17742 0.67 0.411394
Target:  5'- gCGUCGucGGUC-UCaGCGccAGCGCCUCc -3'
miRNA:   3'- gGCAGCu-CCGGuAGaCGC--UCGCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 18038 0.66 0.457603
Target:  5'- uCC-UUGAGGCCGUCUaCGAcuugguggagguaGaCGCCUCg -3'
miRNA:   3'- -GGcAGCUCCGGUAGAcGCU-------------C-GCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 20218 0.66 0.448905
Target:  5'- cUCGUUGuacuGGUagcgguagCUGCGcAGCGCCUCu -3'
miRNA:   3'- -GGCAGCu---CCGgua-----GACGC-UCGCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 20651 0.66 0.498314
Target:  5'- gCCGUacaGGcuGGCCAUCUGCGucuggauguuGGUGCUg- -3'
miRNA:   3'- -GGCAg--CU--CCGGUAGACGC----------UCGCGGag -5'
11540 3' -59.3 NC_003085.1 + 22444 0.67 0.439348
Target:  5'- -gGUUGGGGCgGUacacguaGCG-GCGCCUCa -3'
miRNA:   3'- ggCAGCUCCGgUAga-----CGCuCGCGGAG- -5'
11540 3' -59.3 NC_003085.1 + 22882 0.69 0.303872
Target:  5'- -aGUCGGGGCCGUCgccuccuggGCGGGagcgGCCg- -3'
miRNA:   3'- ggCAGCUCCGGUAGa--------CGCUCg---CGGag -5'
11540 3' -59.3 NC_003085.1 + 23444 0.67 0.439348
Target:  5'- -gGUUGGGGUCGaagugCUGgGGcuGCGCCUCg -3'
miRNA:   3'- ggCAGCUCCGGUa----GACgCU--CGCGGAG- -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.