miRNA display CGI


Results 1 - 20 of 40 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
11456 3' -55.8 NC_003085.1 + 282 0.66 0.636567
Target:  5'- --aGGAGCagcGGCGGcagGaCCGGGCGGCc -3'
miRNA:   3'- guaCUUCGa--CCGCUa--C-GGCCUGUCGu -5'
11456 3' -55.8 NC_003085.1 + 1345 0.69 0.452762
Target:  5'- --aGAcuGCUGGCGAcguUGCCGccaaguacGACAGCGa -3'
miRNA:   3'- guaCUu-CGACCGCU---ACGGC--------CUGUCGU- -5'
11456 3' -55.8 NC_003085.1 + 3551 0.66 0.636567
Target:  5'- -uUGGAccacGCUcaaGGCG--GCCGGGCGGCAa -3'
miRNA:   3'- guACUU----CGA---CCGCuaCGGCCUGUCGU- -5'
11456 3' -55.8 NC_003085.1 + 4023 0.66 0.602959
Target:  5'- ---aGAGUUGGUGGUGCCGuGACGacGCc -3'
miRNA:   3'- guacUUCGACCGCUACGGC-CUGU--CGu -5'
11456 3' -55.8 NC_003085.1 + 4090 0.66 0.602959
Target:  5'- --aGAAGUucugGGUGG-GCCGGGCGGUc -3'
miRNA:   3'- guaCUUCGa---CCGCUaCGGCCUGUCGu -5'
11456 3' -55.8 NC_003085.1 + 4424 0.66 0.614149
Target:  5'- --gGAGGCUGGCGA--CUGGcAgAGCAu -3'
miRNA:   3'- guaCUUCGACCGCUacGGCC-UgUCGU- -5'
11456 3' -55.8 NC_003085.1 + 7640 0.67 0.536681
Target:  5'- uCAUGggGCgcuugGGCGgcGCC-GACAuGCGc -3'
miRNA:   3'- -GUACuuCGa----CCGCuaCGGcCUGU-CGU- -5'
11456 3' -55.8 NC_003085.1 + 9057 0.7 0.385559
Target:  5'- --cGAAGgUGGUGAggaguuggaUGCCGGcCAGCGc -3'
miRNA:   3'- guaCUUCgACCGCU---------ACGGCCuGUCGU- -5'
11456 3' -55.8 NC_003085.1 + 9268 0.66 0.614149
Target:  5'- gGUGAGGUUGGCGggGaugaGGGgGGUAa -3'
miRNA:   3'- gUACUUCGACCGCuaCgg--CCUgUCGU- -5'
11456 3' -55.8 NC_003085.1 + 11369 0.67 0.558552
Target:  5'- --cGAuGgUGGCGgcGCCGGACAccuGCGc -3'
miRNA:   3'- guaCUuCgACCGCuaCGGCCUGU---CGU- -5'
11456 3' -55.8 NC_003085.1 + 12016 0.67 0.547582
Target:  5'- -cUGAcGCUGGCGcaccUGCCGGuGCuGCGc -3'
miRNA:   3'- guACUuCGACCGCu---ACGGCC-UGuCGU- -5'
11456 3' -55.8 NC_003085.1 + 12584 0.7 0.37651
Target:  5'- gGUGcuGCugaUGGUGGUGCCGGACAcCAc -3'
miRNA:   3'- gUACuuCG---ACCGCUACGGCCUGUcGU- -5'
11456 3' -55.8 NC_003085.1 + 19207 0.66 0.625354
Target:  5'- -cUGggGC-GGCGGggGCUGGGCGccgcGCAa -3'
miRNA:   3'- guACuuCGaCCGCUa-CGGCCUGU----CGU- -5'
11456 3' -55.8 NC_003085.1 + 20059 0.69 0.452762
Target:  5'- cCAUG-GGCUGGCcgcGCUGGcGCAGCAa -3'
miRNA:   3'- -GUACuUCGACCGcuaCGGCC-UGUCGU- -5'
11456 3' -55.8 NC_003085.1 + 20090 0.66 0.602959
Target:  5'- -----cGCcaUGGCGuucUGCCGGGCGGCc -3'
miRNA:   3'- guacuuCG--ACCGCu--ACGGCCUGUCGu -5'
11456 3' -55.8 NC_003085.1 + 20411 0.72 0.286699
Target:  5'- ---cAGGCUGGUGGccaacugcUGCUGGACGGCGu -3'
miRNA:   3'- guacUUCGACCGCU--------ACGGCCUGUCGU- -5'
11456 3' -55.8 NC_003085.1 + 22152 0.68 0.504464
Target:  5'- gGUGGuGGCccaGGCGAUGaagGGACAGCAg -3'
miRNA:   3'- gUACU-UCGa--CCGCUACgg-CCUGUCGU- -5'
11456 3' -55.8 NC_003085.1 + 22950 0.67 0.569583
Target:  5'- --cGgcGC-GGCGAaGCCGGACgAGCc -3'
miRNA:   3'- guaCuuCGaCCGCUaCGGCCUG-UCGu -5'
11456 3' -55.8 NC_003085.1 + 24677 0.67 0.565164
Target:  5'- -cUGAAGUUccucuccacggacGUGGUGCUGGACGGCGg -3'
miRNA:   3'- guACUUCGAc------------CGCUACGGCCUGUCGU- -5'
11456 3' -55.8 NC_003085.1 + 26107 0.66 0.636567
Target:  5'- -cUGggGCUGcGCcucgGcgGCCGG-CGGCGc -3'
miRNA:   3'- guACuuCGAC-CG----CuaCGGCCuGUCGU- -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.