miRNA display CGI


Results 1 - 20 of 46 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
21423 3' -57 NC_004812.1 + 120256 0.65 0.900579
Target:  5'- gCCCUGGUgGGCgggcgcgaguccucUUCCGCcccucUGGGGGg -3'
miRNA:   3'- gGGGACCAgUCG--------------AAGGCGau---GCUCCU- -5'
21423 3' -57 NC_004812.1 + 151157 0.65 0.900579
Target:  5'- gCCCUGGUgGGCgggcgcgaguccucUUCCGCcccucUGGGGGg -3'
miRNA:   3'- gGGGACCAgUCG--------------AAGGCGau---GCUCCU- -5'
21423 3' -57 NC_004812.1 + 70716 0.66 0.898681
Target:  5'- aCCCgaGGUCGag--CCGCUcgggguccgaguccaGCGAGGAg -3'
miRNA:   3'- -GGGgaCCAGUcgaaGGCGA---------------UGCUCCU- -5'
21423 3' -57 NC_004812.1 + 55778 0.66 0.898681
Target:  5'- gCCCCUGGgcagccccgcggucgUCAGCg-CCGagaACGAGGu -3'
miRNA:   3'- -GGGGACC---------------AGUCGaaGGCga-UGCUCCu -5'
21423 3' -57 NC_004812.1 + 20941 0.66 0.896119
Target:  5'- cCCCCUGG-CGGCgcugUUggggGCUACGAGu- -3'
miRNA:   3'- -GGGGACCaGUCGa---AGg---CGAUGCUCcu -5'
21423 3' -57 NC_004812.1 + 104643 0.66 0.889557
Target:  5'- cCCCCagcaGGUCguucAGCUccucgUCGUUGCGGGGGu -3'
miRNA:   3'- -GGGGa---CCAG----UCGAa----GGCGAUGCUCCU- -5'
21423 3' -57 NC_004812.1 + 26454 0.66 0.889557
Target:  5'- uCCCCgaggacgaggGGUCGcuuGCUcUCUGCgcggGCGGGGGa -3'
miRNA:   3'- -GGGGa---------CCAGU---CGA-AGGCGa---UGCUCCU- -5'
21423 3' -57 NC_004812.1 + 70995 0.66 0.889557
Target:  5'- gCCCgcgGGUCGGCcgccagggCCGCca-GGGGAa -3'
miRNA:   3'- gGGGa--CCAGUCGaa------GGCGaugCUCCU- -5'
21423 3' -57 NC_004812.1 + 76444 0.66 0.889557
Target:  5'- gCCCg---CGGCgcugUCCGCgagggcgACGAGGAa -3'
miRNA:   3'- gGGGaccaGUCGa---AGGCGa------UGCUCCU- -5'
21423 3' -57 NC_004812.1 + 155108 0.66 0.887545
Target:  5'- gCCCCgUgaauaauucacgacGGUUGGC-UCCGCggcgGCGGGGGg -3'
miRNA:   3'- -GGGG-A--------------CCAGUCGaAGGCGa---UGCUCCU- -5'
21423 3' -57 NC_004812.1 + 124207 0.66 0.887545
Target:  5'- gCCCCgUgaauaauucacgacGGUUGGC-UCCGCggcgGCGGGGGg -3'
miRNA:   3'- -GGGG-A--------------CCAGUCGaAGGCGa---UGCUCCU- -5'
21423 3' -57 NC_004812.1 + 96139 0.66 0.882775
Target:  5'- gCCCUGGcCGGCcUCCuCUuCGGGGc -3'
miRNA:   3'- gGGGACCaGUCGaAGGcGAuGCUCCu -5'
21423 3' -57 NC_004812.1 + 45273 0.66 0.882775
Target:  5'- gCCCgcggGGUCGGCg-CCGCcGCGGGc- -3'
miRNA:   3'- gGGGa---CCAGUCGaaGGCGaUGCUCcu -5'
21423 3' -57 NC_004812.1 + 56266 0.66 0.882775
Target:  5'- gCCCCUGcGccucgcccgCGGCggcCCGCU-CGAGGGc -3'
miRNA:   3'- -GGGGAC-Ca--------GUCGaa-GGCGAuGCUCCU- -5'
21423 3' -57 NC_004812.1 + 142302 0.66 0.882775
Target:  5'- aCCCUGGcCAGCaaccCCGCcucCGuGGAg -3'
miRNA:   3'- gGGGACCaGUCGaa--GGCGau-GCuCCU- -5'
21423 3' -57 NC_004812.1 + 95990 0.66 0.882084
Target:  5'- aCCUCUGGaUCcgggggcccgccgAGCgcccccUCCGCUACG-GGAc -3'
miRNA:   3'- -GGGGACC-AG-------------UCGa-----AGGCGAUGCuCCU- -5'
21423 3' -57 NC_004812.1 + 28827 0.66 0.875777
Target:  5'- -gCCUGGUCccGCc-CCaGCUGCGGGGGc -3'
miRNA:   3'- ggGGACCAGu-CGaaGG-CGAUGCUCCU- -5'
21423 3' -57 NC_004812.1 + 154837 0.66 0.875777
Target:  5'- cUCCC--GUCGGCgcggggcgCgGCUGCGAGGGg -3'
miRNA:   3'- -GGGGacCAGUCGaa------GgCGAUGCUCCU- -5'
21423 3' -57 NC_004812.1 + 47064 0.66 0.875777
Target:  5'- gUCCUGcGUCAGCg-CCGCgaucgcCGGGGGc -3'
miRNA:   3'- gGGGAC-CAGUCGaaGGCGau----GCUCCU- -5'
21423 3' -57 NC_004812.1 + 29329 0.66 0.875777
Target:  5'- cUCCC--GUCGGCgcggggcgCgGCUGCGAGGGg -3'
miRNA:   3'- -GGGGacCAGUCGaa------GgCGAUGCUCCU- -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.