miRNA display CGI


Results 1 - 20 of 64 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
8955 3' -56.8 NC_002512.2 + 212154 0.66 0.951539
Target:  5'- gGCgGGCacuGGCGGCGGgacgGCUGggcCGUCc -3'
miRNA:   3'- gCGaCCG---CCGCUGUCa---CGAUa--GCAGc -5'
8955 3' -56.8 NC_002512.2 + 113726 0.67 0.893064
Target:  5'- aCGCgGGCGGCGAUcugcgggccgaGGUGCgcggUcauggagccgaccaGUCGUCGa -3'
miRNA:   3'- -GCGaCCGCCGCUG-----------UCACG----A--------------UAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 179643 0.68 0.881859
Target:  5'- aGCUGGauCGGCGACGGcgacGCgcUUGUCa -3'
miRNA:   3'- gCGACC--GCCGCUGUCa---CGauAGCAGc -5'
8955 3' -56.8 NC_002512.2 + 213370 1.1 0.003698
Target:  5'- gCGCUGGCGGCGACAGUGCUAUCGUCGg -3'
miRNA:   3'- -GCGACCGCCGCUGUCACGAUAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 89233 0.66 0.93876
Target:  5'- uGUUGGUgacGGCGACGGaGCUcUCG-CGg -3'
miRNA:   3'- gCGACCG---CCGCUGUCaCGAuAGCaGC- -5'
8955 3' -56.8 NC_002512.2 + 15328 0.66 0.93876
Target:  5'- uCGCccUGGUcgcGGUGACAGUGCUcgCaGUUa -3'
miRNA:   3'- -GCG--ACCG---CCGCUGUCACGAuaG-CAGc -5'
8955 3' -56.8 NC_002512.2 + 75352 0.66 0.929142
Target:  5'- gCGgaGGCGGCGGacCGGUaGCgaucuUCGUCc -3'
miRNA:   3'- -GCgaCCGCCGCU--GUCA-CGau---AGCAGc -5'
8955 3' -56.8 NC_002512.2 + 179485 0.67 0.924
Target:  5'- uGCUucGGCGGCGuCGucGCcAUCGUCGu -3'
miRNA:   3'- gCGA--CCGCCGCuGUcaCGaUAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 190324 0.67 0.918636
Target:  5'- uGCUGGgGGaCGACGG-GU--UCGUCu -3'
miRNA:   3'- gCGACCgCC-GCUGUCaCGauAGCAGc -5'
8955 3' -56.8 NC_002512.2 + 126449 0.67 0.894978
Target:  5'- gGCgacGGCGGCGGCcgccuuGUucGCcGUCGUCGu -3'
miRNA:   3'- gCGa--CCGCCGCUGu-----CA--CGaUAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 150946 0.67 0.901219
Target:  5'- gGCUccGGCGGCcgcggacucggaGGCGG-GCUcgCGUCGc -3'
miRNA:   3'- gCGA--CCGCCG------------CUGUCaCGAuaGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 161712 0.67 0.918636
Target:  5'- aCGC-GGcCGGCGACGGg---AUCGUCu -3'
miRNA:   3'- -GCGaCC-GCCGCUGUCacgaUAGCAGc -5'
8955 3' -56.8 NC_002512.2 + 117435 0.66 0.947497
Target:  5'- aCGCUGGCcGUGAugcacCAGaaGCUGUCGcCGg -3'
miRNA:   3'- -GCGACCGcCGCU-----GUCa-CGAUAGCaGC- -5'
8955 3' -56.8 NC_002512.2 + 188564 0.67 0.901219
Target:  5'- aGCUccGGCGGCGACgacuucucGGUcuGCgucgaccagGUCGUCGa -3'
miRNA:   3'- gCGA--CCGCCGCUG--------UCA--CGa--------UAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 219021 0.66 0.947081
Target:  5'- uGCU-GCuGCGAC-GUGCUggucuacGUCGUCGg -3'
miRNA:   3'- gCGAcCGcCGCUGuCACGA-------UAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 179563 0.67 0.918636
Target:  5'- gGCUcgaucuucGGCGGCGGCAGgaucGCaucuugggCGUCGa -3'
miRNA:   3'- gCGA--------CCGCCGCUGUCa---CGaua-----GCAGC- -5'
8955 3' -56.8 NC_002512.2 + 160837 0.67 0.894978
Target:  5'- gGCgGGCGGcCGGCGGcGCUGggcgcaGUCGc -3'
miRNA:   3'- gCGaCCGCC-GCUGUCaCGAUag----CAGC- -5'
8955 3' -56.8 NC_002512.2 + 201705 0.68 0.888524
Target:  5'- uGCgGGauCGGCGGCGGcGUcGUCGUCGc -3'
miRNA:   3'- gCGaCC--GCCGCUGUCaCGaUAGCAGC- -5'
8955 3' -56.8 NC_002512.2 + 131679 0.66 0.946242
Target:  5'- cCGCgagGGCGGUGAgcccggagcgcaggUAGUGCUGcUCGgagaCGa -3'
miRNA:   3'- -GCGa--CCGCCGCU--------------GUCACGAU-AGCa---GC- -5'
8955 3' -56.8 NC_002512.2 + 146643 0.66 0.934062
Target:  5'- uGCUGGCGGCGACgAGgagggagGCU-UCccCGg -3'
miRNA:   3'- gCGACCGCCGCUG-UCa------CGAuAGcaGC- -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.