miRNA display CGI


Results 1 - 20 of 56 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
28130 3' -60.4 NC_005887.1 + 345 0.66 0.376775
Target:  5'- gCGAGC-CGUCgCaUGUgCGCGGUGAGCUg -3'
miRNA:   3'- -GCUCGcGCAGgG-ACG-GCGUCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 1482 0.67 0.334964
Target:  5'- aGcuCGCGUucgUCUUGCCGCugccgAGCGGGCCc -3'
miRNA:   3'- gCucGCGCA---GGGACGGCG-----UCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 1574 0.67 0.319216
Target:  5'- cCGGGUacGUGUUCCgcacgGCCGCGccgcGCGAGCg -3'
miRNA:   3'- -GCUCG--CGCAGGGa----CGGCGU----CGUUCGg -5'
28130 3' -60.4 NC_005887.1 + 3090 0.67 0.343049
Target:  5'- cCGAGCaUGgCUUUGcCCGCGGCGcuGGCCg -3'
miRNA:   3'- -GCUCGcGCaGGGAC-GGCGUCGU--UCGG- -5'
28130 3' -60.4 NC_005887.1 + 5434 0.66 0.368137
Target:  5'- -cGGCGCGaccacgccgCCCgcuggcacuccUGCCGCAuccaccacgacGCAGGCCg -3'
miRNA:   3'- gcUCGCGCa--------GGG-----------ACGGCGU-----------CGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 5491 0.72 0.159009
Target:  5'- -uGGCGCagcaCCgGCCGCAGCAccGGCCg -3'
miRNA:   3'- gcUCGCGcag-GGaCGGCGUCGU--UCGG- -5'
28130 3' -60.4 NC_005887.1 + 5495 0.67 0.30403
Target:  5'- gCGGGCGCGUggucgCgCCgGUCGCuGCGGcGCCg -3'
miRNA:   3'- -GCUCGCGCA-----G-GGaCGGCGuCGUU-CGG- -5'
28130 3' -60.4 NC_005887.1 + 5587 0.72 0.13877
Target:  5'- --cGUGCGUgCCUGCUGCGGCcggugcugcGGCCg -3'
miRNA:   3'- gcuCGCGCAgGGACGGCGUCGu--------UCGG- -5'
28130 3' -60.4 NC_005887.1 + 8655 0.67 0.32702
Target:  5'- aGAGCucgccaGCGUCgaacgaaaCCUGCUGCGGUgcuGCCu -3'
miRNA:   3'- gCUCG------CGCAG--------GGACGGCGUCGuu-CGG- -5'
28130 3' -60.4 NC_005887.1 + 8773 0.66 0.359636
Target:  5'- aCGaAGCGCuuaCC-GCCGCGGCGGaucGCCg -3'
miRNA:   3'- -GC-UCGCGcagGGaCGGCGUCGUU---CGG- -5'
28130 3' -60.4 NC_005887.1 + 9822 0.66 0.368137
Target:  5'- gCGAaCGCGUCgCaGCCGguCAGCGcGGCCa -3'
miRNA:   3'- -GCUcGCGCAGgGaCGGC--GUCGU-UCGG- -5'
28130 3' -60.4 NC_005887.1 + 11374 0.67 0.334964
Target:  5'- -cGGCGC-UCgCUGCCG-AGCcGGCCg -3'
miRNA:   3'- gcUCGCGcAGgGACGGCgUCGuUCGG- -5'
28130 3' -60.4 NC_005887.1 + 11787 0.7 0.191811
Target:  5'- uCGuGCGCG-CCgUGCgCGCGGCgAAGCg -3'
miRNA:   3'- -GCuCGCGCaGGgACG-GCGUCG-UUCGg -5'
28130 3' -60.4 NC_005887.1 + 12135 0.75 0.086443
Target:  5'- cCGAGCGaCGUgccgaCCUGCUGCAGCGcggcGCCu -3'
miRNA:   3'- -GCUCGC-GCAg----GGACGGCGUCGUu---CGG- -5'
28130 3' -60.4 NC_005887.1 + 12932 1.12 0.000136
Target:  5'- gCGAGCGCGUCCCUGCCGCAGCAAGCCg -3'
miRNA:   3'- -GCUCGCGCAGGGACGGCGUCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 13554 0.69 0.230401
Target:  5'- -cGGCGaugCgCUGCCGCccgAGCAGGCCg -3'
miRNA:   3'- gcUCGCgcaGgGACGGCG---UCGUUCGG- -5'
28130 3' -60.4 NC_005887.1 + 13687 0.67 0.32702
Target:  5'- uGAGUGCGgccgCCgcgcgccgcgCUGCCaGCAGCGaugaaguacgcGGCCu -3'
miRNA:   3'- gCUCGCGCa---GG----------GACGG-CGUCGU-----------UCGG- -5'
28130 3' -60.4 NC_005887.1 + 14683 0.66 0.376775
Target:  5'- uGAGCGCG-CCCU--CGaCGGCGccgacGGCCg -3'
miRNA:   3'- gCUCGCGCaGGGAcgGC-GUCGU-----UCGG- -5'
28130 3' -60.4 NC_005887.1 + 15846 0.67 0.323881
Target:  5'- -cGGCGCGaucgagggaaacgCCC-GCgCGCAGCAGGCg -3'
miRNA:   3'- gcUCGCGCa------------GGGaCG-GCGUCGUUCGg -5'
28130 3' -60.4 NC_005887.1 + 15911 0.72 0.13839
Target:  5'- gCGGGCGUuUCCCUcgaucgcGCCGC-GCAAGCg -3'
miRNA:   3'- -GCUCGCGcAGGGA-------CGGCGuCGUUCGg -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.