miRNA display CGI


Results 1 - 18 of 18 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
7217 5' -55.4 NC_001900.1 + 23311 0.66 0.645406
Target:  5'- gCUCCGCGUgcgccgGGgcgcgGCCCgcguCGGCGAGAAGAu -3'
miRNA:   3'- -GGGGCGCG------UCa----UGGG----GUCGUUCUUUU- -5'
7217 5' -55.4 NC_001900.1 + 10836 0.66 0.645406
Target:  5'- uCCCCGCaacgagagguuGCGGagcgACCuCCAGUggGAGu- -3'
miRNA:   3'- -GGGGCG-----------CGUCa---UGG-GGUCGuuCUUuu -5'
7217 5' -55.4 NC_001900.1 + 6497 0.66 0.63419
Target:  5'- -aCgGCGCGGUcCCCCAGCucGGc-- -3'
miRNA:   3'- ggGgCGCGUCAuGGGGUCGuuCUuuu -5'
7217 5' -55.4 NC_001900.1 + 23133 0.66 0.63419
Target:  5'- gCCCUgaccggGCGCA--GCCCgGGCGAGGAc- -3'
miRNA:   3'- -GGGG------CGCGUcaUGGGgUCGUUCUUuu -5'
7217 5' -55.4 NC_001900.1 + 28155 0.66 0.622972
Target:  5'- gCCgCCGaagGCGGUcucgguGCCCCAGCcAGAGu- -3'
miRNA:   3'- -GG-GGCg--CGUCA------UGGGGUCGuUCUUuu -5'
7217 5' -55.4 NC_001900.1 + 25592 0.66 0.622972
Target:  5'- cCCCCGCGUGGUGgUCac-CAGGAGAGc -3'
miRNA:   3'- -GGGGCGCGUCAUgGGgucGUUCUUUU- -5'
7217 5' -55.4 NC_001900.1 + 19030 0.66 0.611763
Target:  5'- aCCUCGCGCAuGUcgaucacuggcAUCCCGGCGcAGAc-- -3'
miRNA:   3'- -GGGGCGCGU-CA-----------UGGGGUCGU-UCUuuu -5'
7217 5' -55.4 NC_001900.1 + 4659 0.66 0.611763
Target:  5'- aCCCCG-GaCGGUACgCCAGCGAucGAGc -3'
miRNA:   3'- -GGGGCgC-GUCAUGgGGUCGUUcuUUU- -5'
7217 5' -55.4 NC_001900.1 + 43463 0.67 0.567203
Target:  5'- gCCCaGCGCAGcuccgacaGCUCCAGCGGGuGAAc -3'
miRNA:   3'- gGGG-CGCGUCa-------UGGGGUCGUUCuUUU- -5'
7217 5' -55.4 NC_001900.1 + 47278 0.67 0.567203
Target:  5'- gCCCGCGUAGcacACCUUGGCAcAGAAc- -3'
miRNA:   3'- gGGGCGCGUCa--UGGGGUCGU-UCUUuu -5'
7217 5' -55.4 NC_001900.1 + 15822 0.68 0.527826
Target:  5'- aCUCCGCGCcguggcuggugccgaAGUACgCCAGCGucacGGAGGc -3'
miRNA:   3'- -GGGGCGCG---------------UCAUGgGGUCGU----UCUUUu -5'
7217 5' -55.4 NC_001900.1 + 40418 0.7 0.430718
Target:  5'- gCCCGUGCAGgaaCaCCAGCGGGGc-- -3'
miRNA:   3'- gGGGCGCGUCaugG-GGUCGUUCUuuu -5'
7217 5' -55.4 NC_001900.1 + 30550 0.71 0.374482
Target:  5'- uCCCCGCGUacgucaGGUACUCCGGguGGu--- -3'
miRNA:   3'- -GGGGCGCG------UCAUGGGGUCguUCuuuu -5'
7217 5' -55.4 NC_001900.1 + 24035 0.71 0.356009
Target:  5'- gCCCGCGCcaaccucGGUGCcgaggcggcuauCCCGGCAGGGAc- -3'
miRNA:   3'- gGGGCGCG-------UCAUG------------GGGUCGUUCUUuu -5'
7217 5' -55.4 NC_001900.1 + 40462 0.71 0.34829
Target:  5'- aCCCCGaCGCGGaaACCgUCAGCGAGGAc- -3'
miRNA:   3'- -GGGGC-GCGUCa-UGG-GGUCGUUCUUuu -5'
7217 5' -55.4 NC_001900.1 + 23641 0.72 0.331569
Target:  5'- aCCUCGCGCAGUuggGCUaCCGGCGuAGAGGc -3'
miRNA:   3'- -GGGGCGCGUCA---UGG-GGUCGU-UCUUUu -5'
7217 5' -55.4 NC_001900.1 + 5400 0.73 0.256912
Target:  5'- gCCaCUGCGgAGUACgCCAGCGGGGAc- -3'
miRNA:   3'- -GG-GGCGCgUCAUGgGGUCGUUCUUuu -5'
7217 5' -55.4 NC_001900.1 + 16187 1.08 0.00085
Target:  5'- gCCCCGCGCAGUACCCCAGCAAGAAAAa -3'
miRNA:   3'- -GGGGCGCGUCAUGGGGUCGUUCUUUU- -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.