miRNA display CGI


Results 1 - 20 of 27 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
23306 5' -56 NC_005259.1 + 55330 0.66 0.773943
Target:  5'- gUGGUCuUGG-CGGCagcgGUGGCGaUGCCg -3'
miRNA:   3'- -ACCAGcACCaGCUGa---CGCUGUgACGG- -5'
23306 5' -56 NC_005259.1 + 11286 0.66 0.773943
Target:  5'- aUGGUCugaggacGGUCGACggGCGugAg-GCCg -3'
miRNA:   3'- -ACCAGca-----CCAGCUGa-CGCugUgaCGG- -5'
23306 5' -56 NC_005259.1 + 8448 0.66 0.772964
Target:  5'- gUGGUCucgguGUGGUCGagguagaGCUGCacgagcaccGCGCUGUCg -3'
miRNA:   3'- -ACCAG-----CACCAGC-------UGACGc--------UGUGACGG- -5'
23306 5' -56 NC_005259.1 + 56102 0.66 0.754098
Target:  5'- gGGgccaccgCGUGGccacCGAaaCUGUGuGCGCUGCCg -3'
miRNA:   3'- aCCa------GCACCa---GCU--GACGC-UGUGACGG- -5'
23306 5' -56 NC_005259.1 + 63279 0.66 0.754098
Target:  5'- uUGGUCG-GGUCGAUgccuucacgUGCGAgcaGCgggGUCa -3'
miRNA:   3'- -ACCAGCaCCAGCUG---------ACGCUg--UGa--CGG- -5'
23306 5' -56 NC_005259.1 + 40808 0.66 0.743993
Target:  5'- cGGUCacccucggGGUCGAC-GCG-CACgauggGCCg -3'
miRNA:   3'- aCCAGca------CCAGCUGaCGCuGUGa----CGG- -5'
23306 5' -56 NC_005259.1 + 58568 0.66 0.743993
Target:  5'- cGGUUG-GGcCGGaucGCGGCgcgGCUGCCg -3'
miRNA:   3'- aCCAGCaCCaGCUga-CGCUG---UGACGG- -5'
23306 5' -56 NC_005259.1 + 29888 0.66 0.743993
Target:  5'- -uGUCGaGGUCGGCaagcacaagGgGugGCUGCCc -3'
miRNA:   3'- acCAGCaCCAGCUGa--------CgCugUGACGG- -5'
23306 5' -56 NC_005259.1 + 64377 0.66 0.741959
Target:  5'- aGGUCuucaucugcuuuuGUGGgUCGgugaugaGCUGCGAUGCaGCCg -3'
miRNA:   3'- aCCAG-------------CACC-AGC-------UGACGCUGUGaCGG- -5'
23306 5' -56 NC_005259.1 + 51020 0.66 0.733781
Target:  5'- uUGGUCGUGcuacCGACgagcgGCGgGCACgcGCCa -3'
miRNA:   3'- -ACCAGCACca--GCUGa----CGC-UGUGa-CGG- -5'
23306 5' -56 NC_005259.1 + 27066 0.66 0.722436
Target:  5'- cGGUCacGG-CGACaucgccgacauucUGCGGCGgCUGCCa -3'
miRNA:   3'- aCCAGcaCCaGCUG-------------ACGCUGU-GACGG- -5'
23306 5' -56 NC_005259.1 + 59306 0.67 0.702606
Target:  5'- -uGUCGUGG-CGGCaGCGGCgaGCUcaGCCu -3'
miRNA:   3'- acCAGCACCaGCUGaCGCUG--UGA--CGG- -5'
23306 5' -56 NC_005259.1 + 13447 0.67 0.670846
Target:  5'- aGG-CGUGaccGUCGGCgcgGCGcuggugcucaccGCGCUGCCc -3'
miRNA:   3'- aCCaGCAC---CAGCUGa--CGC------------UGUGACGG- -5'
23306 5' -56 NC_005259.1 + 66660 0.67 0.670846
Target:  5'- cGGUCGgcGGU--GCUGCGAUGCucaucgUGCCg -3'
miRNA:   3'- aCCAGCa-CCAgcUGACGCUGUG------ACGG- -5'
23306 5' -56 NC_005259.1 + 8655 0.68 0.649482
Target:  5'- aGGcUGUGGUCgGGCUGCcACGCgggcaacgggGCCg -3'
miRNA:   3'- aCCaGCACCAG-CUGACGcUGUGa---------CGG- -5'
23306 5' -56 NC_005259.1 + 21580 0.68 0.649482
Target:  5'- aGGUCGauUGGcCa--UGCGACACcGCCa -3'
miRNA:   3'- aCCAGC--ACCaGcugACGCUGUGaCGG- -5'
23306 5' -56 NC_005259.1 + 28047 0.68 0.649482
Target:  5'- cGGcUUG-GGaUCGAuCUGCGACccCUGCCg -3'
miRNA:   3'- aCC-AGCaCC-AGCU-GACGCUGu-GACGG- -5'
23306 5' -56 NC_005259.1 + 35772 0.68 0.626986
Target:  5'- --aUCGUGGUCGACcacgggaUGuCGACGCcgcGCCu -3'
miRNA:   3'- accAGCACCAGCUG-------AC-GCUGUGa--CGG- -5'
23306 5' -56 NC_005259.1 + 48979 0.68 0.605578
Target:  5'- gGGUCGUGa-CGGCUGgGAUuacagcgAUUGCCg -3'
miRNA:   3'- aCCAGCACcaGCUGACgCUG-------UGACGG- -5'
23306 5' -56 NC_005259.1 + 41092 0.69 0.584256
Target:  5'- cGGUCGUagucggcGGUCGGCgguaugacgaUGuCGGCGgUGCCc -3'
miRNA:   3'- aCCAGCA-------CCAGCUG----------AC-GCUGUgACGG- -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.