miRNA display CGI


Results 1 - 20 of 24 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
10715 3' -55.7 NC_002794.1 + 55416 0.66 0.959049
Target:  5'- -gCCGAGGCGAccccGGCguccgCGUCgccCCGcAGc -3'
miRNA:   3'- gaGGCUCCGCU----UCGa----GCAGa--GGCuUC- -5'
10715 3' -55.7 NC_002794.1 + 105469 0.66 0.959049
Target:  5'- uUCUGGGaCGAcgAGCcgUCGUCUCCGGu- -3'
miRNA:   3'- gAGGCUCcGCU--UCG--AGCAGAGGCUuc -5'
10715 3' -55.7 NC_002794.1 + 53899 0.66 0.951489
Target:  5'- aCUCCGGcGGCGuc-CUCGUCgCCGucGg -3'
miRNA:   3'- -GAGGCU-CCGCuucGAGCAGaGGCuuC- -5'
10715 3' -55.7 NC_002794.1 + 90997 0.66 0.951489
Target:  5'- -gCCGAGGCGGAGCgggcCGaCaCCGAc- -3'
miRNA:   3'- gaGGCUCCGCUUCGa---GCaGaGGCUuc -5'
10715 3' -55.7 NC_002794.1 + 37135 0.66 0.951489
Target:  5'- gCUCCGccgggucgaGGGCGcAGCUCcagucgCUCCGGAu -3'
miRNA:   3'- -GAGGC---------UCCGCuUCGAGca----GAGGCUUc -5'
10715 3' -55.7 NC_002794.1 + 32596 0.66 0.943048
Target:  5'- -gCCGGGGcCGggGC-CGgggCCGggGa -3'
miRNA:   3'- gaGGCUCC-GCuuCGaGCagaGGCuuC- -5'
10715 3' -55.7 NC_002794.1 + 118037 0.67 0.933704
Target:  5'- gCUCCaGcAGGCGAgcguGGCcCGUCUCgCGGAa -3'
miRNA:   3'- -GAGG-C-UCCGCU----UCGaGCAGAG-GCUUc -5'
10715 3' -55.7 NC_002794.1 + 136733 0.67 0.923446
Target:  5'- gUCC-AGGCGGucgaGGUUCGUCUCCc--- -3'
miRNA:   3'- gAGGcUCCGCU----UCGAGCAGAGGcuuc -5'
10715 3' -55.7 NC_002794.1 + 129840 0.67 0.917973
Target:  5'- -gUCGAGGCGGAGCggaaccucCGUCgcgaaCGggGg -3'
miRNA:   3'- gaGGCUCCGCUUCGa-------GCAGag---GCuuC- -5'
10715 3' -55.7 NC_002794.1 + 128623 0.67 0.912273
Target:  5'- -aCCGGuuGGCGAGGUaCGaUUCCGAGGa -3'
miRNA:   3'- gaGGCU--CCGCUUCGaGCaGAGGCUUC- -5'
10715 3' -55.7 NC_002794.1 + 1223 0.67 0.912273
Target:  5'- -cCCGGGGCGu-GUUcuauaaccCGUCUCCGAGc -3'
miRNA:   3'- gaGGCUCCGCuuCGA--------GCAGAGGCUUc -5'
10715 3' -55.7 NC_002794.1 + 17249 0.68 0.906345
Target:  5'- cCUUCGAcggcGGCGAcccGGCUCGUCacCCGGGc -3'
miRNA:   3'- -GAGGCU----CCGCU---UCGAGCAGa-GGCUUc -5'
10715 3' -55.7 NC_002794.1 + 26647 0.68 0.893817
Target:  5'- -cCCGGacGGCGGccGGCUCGUCggCGggGu -3'
miRNA:   3'- gaGGCU--CCGCU--UCGAGCAGagGCuuC- -5'
10715 3' -55.7 NC_002794.1 + 128273 0.68 0.873389
Target:  5'- -gCCGAGcGCGGAGCcgacggcCGUCUUCGAc- -3'
miRNA:   3'- gaGGCUC-CGCUUCGa------GCAGAGGCUuc -5'
10715 3' -55.7 NC_002794.1 + 32652 0.68 0.873389
Target:  5'- -aCCGGGGCGAcGGCgccguccccgUCGUCcgccaaccguccUCCGGAGg -3'
miRNA:   3'- gaGGCUCCGCU-UCG----------AGCAG------------AGGCUUC- -5'
10715 3' -55.7 NC_002794.1 + 121507 0.68 0.872675
Target:  5'- -gCCGGGGCGAcgacguccgaaccGGCggUCGUCUCgaCGGAGc -3'
miRNA:   3'- gaGGCUCCGCU-------------UCG--AGCAGAG--GCUUC- -5'
10715 3' -55.7 NC_002794.1 + 31525 0.69 0.858728
Target:  5'- gCUCCGGuugcgcGGCG-AGCcccgaCGUCUCCGAGa -3'
miRNA:   3'- -GAGGCU------CCGCuUCGa----GCAGAGGCUUc -5'
10715 3' -55.7 NC_002794.1 + 114244 0.69 0.843283
Target:  5'- -gUCGAGGUGguGaaagagCGUCUCCGggGg -3'
miRNA:   3'- gaGGCUCCGCuuCga----GCAGAGGCuuC- -5'
10715 3' -55.7 NC_002794.1 + 44192 0.69 0.835282
Target:  5'- aCUCCG-GGCGAAGC-CGgg-CCGAc- -3'
miRNA:   3'- -GAGGCuCCGCUUCGaGCagaGGCUuc -5'
10715 3' -55.7 NC_002794.1 + 180986 0.71 0.774731
Target:  5'- aCUCCGAGaCGGAGCUCGUCUn----- -3'
miRNA:   3'- -GAGGCUCcGCUUCGAGCAGAggcuuc -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.