miRNA display CGI


Results 1 - 20 of 36 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
26556 5' -54.5 NC_005357.1 + 13121 0.66 0.70576
Target:  5'- -cGGGUUGCCGgCCAGgcgUGgGUCGUUc -3'
miRNA:   3'- gcUUCGACGGCaGGUCa--ACgUAGCGG- -5'
26556 5' -54.5 NC_005357.1 + 15251 0.66 0.70576
Target:  5'- aGAGGgucggcCUGCCGcacaaaCAGUUGCccgcuGUCGCCc -3'
miRNA:   3'- gCUUC------GACGGCag----GUCAACG-----UAGCGG- -5'
26556 5' -54.5 NC_005357.1 + 10671 0.66 0.694688
Target:  5'- ---cGCcGCCGugUCCAGUUGCGUCu-- -3'
miRNA:   3'- gcuuCGaCGGC--AGGUCAACGUAGcgg -5'
26556 5' -54.5 NC_005357.1 + 23455 0.66 0.694688
Target:  5'- gCGAcuGGCguuacGUCGUCC----GCAUCGCCa -3'
miRNA:   3'- -GCU--UCGa----CGGCAGGucaaCGUAGCGG- -5'
26556 5' -54.5 NC_005357.1 + 27565 0.66 0.694688
Target:  5'- uCGAAGUUGCgCGUaaagggcaCCGGcaGCAggcggCGCCa -3'
miRNA:   3'- -GCUUCGACG-GCA--------GGUCaaCGUa----GCGG- -5'
26556 5' -54.5 NC_005357.1 + 17270 0.66 0.694688
Target:  5'- cCGggGauauUGCCGUCCAcgaaGCcggCGCCg -3'
miRNA:   3'- -GCuuCg---ACGGCAGGUcaa-CGua-GCGG- -5'
26556 5' -54.5 NC_005357.1 + 4314 0.66 0.672365
Target:  5'- gGAcAGCUuGCCGgcgucaUCCAGUUGCGg-GCUg -3'
miRNA:   3'- gCU-UCGA-CGGC------AGGUCAACGUagCGG- -5'
26556 5' -54.5 NC_005357.1 + 6200 0.66 0.672365
Target:  5'- cCGAAGCcgauaGCCG-CCGGguucUGCGUuuUGCCu -3'
miRNA:   3'- -GCUUCGa----CGGCaGGUCa---ACGUA--GCGG- -5'
26556 5' -54.5 NC_005357.1 + 448 0.66 0.661138
Target:  5'- -uGGGCUGCUGcgcggCCAGcUUGCGggCGCUg -3'
miRNA:   3'- gcUUCGACGGCa----GGUC-AACGUa-GCGG- -5'
26556 5' -54.5 NC_005357.1 + 13854 0.66 0.661138
Target:  5'- ---cGCUGCCGguggCCGacgUGCG-CGCCg -3'
miRNA:   3'- gcuuCGACGGCa---GGUca-ACGUaGCGG- -5'
26556 5' -54.5 NC_005357.1 + 32665 0.66 0.660014
Target:  5'- gCGAAGCUGCCcgacgugaagcccGagCAGUucgccgacgUGC-UCGCCg -3'
miRNA:   3'- -GCUUCGACGG-------------CagGUCA---------ACGuAGCGG- -5'
26556 5' -54.5 NC_005357.1 + 19609 0.66 0.649882
Target:  5'- uCGAucUUGCCGUCCGGggucaUGCGg-GCCg -3'
miRNA:   3'- -GCUucGACGGCAGGUCa----ACGUagCGG- -5'
26556 5' -54.5 NC_005357.1 + 35372 0.66 0.649882
Target:  5'- aCGAcGCUGCCGcCCGag-GCcaugCGCCu -3'
miRNA:   3'- -GCUuCGACGGCaGGUcaaCGua--GCGG- -5'
26556 5' -54.5 NC_005357.1 + 10070 0.66 0.649882
Target:  5'- cCGAGGC-GUCGUCgGGgcgaGCcgUGCCa -3'
miRNA:   3'- -GCUUCGaCGGCAGgUCaa--CGuaGCGG- -5'
26556 5' -54.5 NC_005357.1 + 34925 0.66 0.649882
Target:  5'- cCGAAacGCgcGCCG-CCAGUUGCAagggGCCu -3'
miRNA:   3'- -GCUU--CGa-CGGCaGGUCAACGUag--CGG- -5'
26556 5' -54.5 NC_005357.1 + 25013 0.67 0.63861
Target:  5'- aCGAcagcgGGUUGCCGUCCgAGUcaaaccacgUGUcgCGCg -3'
miRNA:   3'- -GCU-----UCGACGGCAGG-UCA---------ACGuaGCGg -5'
26556 5' -54.5 NC_005357.1 + 9094 0.67 0.604797
Target:  5'- gGccGCgagGCCGUucuugCCGGUgggcagGUAUCGCCa -3'
miRNA:   3'- gCuuCGa--CGGCA-----GGUCAa-----CGUAGCGG- -5'
26556 5' -54.5 NC_005357.1 + 29757 0.68 0.571205
Target:  5'- uCGGccucGGCUGCUG-CCAGgcGCGUgCGCg -3'
miRNA:   3'- -GCU----UCGACGGCaGGUCaaCGUA-GCGg -5'
26556 5' -54.5 NC_005357.1 + 2448 0.68 0.5601
Target:  5'- cCGAAaCUGCgGcCCAGgcGC-UCGCCu -3'
miRNA:   3'- -GCUUcGACGgCaGGUCaaCGuAGCGG- -5'
26556 5' -54.5 NC_005357.1 + 16943 0.68 0.549056
Target:  5'- --cGGC-GCCGUCCAGcaGCGU-GCCg -3'
miRNA:   3'- gcuUCGaCGGCAGGUCaaCGUAgCGG- -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.