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
6623 3' -54.6 NC_001847.1 + 46613 0.66 0.944556
Target:  5'- cCUCGCGGCgcacgagcgUGGU-GAAGcacaGGUUGUGCg -3'
miRNA:   3'- -GGGCGUCG---------ACCAcCUUCa---UCAGCACG- -5'
6623 3' -54.6 NC_001847.1 + 81159 0.66 0.939925
Target:  5'- -aCGCGGCgccgGGcGGAAGacGUgGUGCg -3'
miRNA:   3'- ggGCGUCGa---CCaCCUUCauCAgCACG- -5'
6623 3' -54.6 NC_001847.1 + 78526 0.66 0.939925
Target:  5'- uCgCGCGGCUGGUgucgccGGAAGacgcgAGUCccgGCg -3'
miRNA:   3'- -GgGCGUCGACCA------CCUUCa----UCAGca-CG- -5'
6623 3' -54.6 NC_001847.1 + 16503 0.66 0.939925
Target:  5'- uCCCGCGcGCggccugaGGUGGAgagGGUAacGUCGcUGUa -3'
miRNA:   3'- -GGGCGU-CGa------CCACCU---UCAU--CAGC-ACG- -5'
6623 3' -54.6 NC_001847.1 + 72171 0.66 0.934552
Target:  5'- aCCGCGuguacccGCUGGUGc-AGUcGGUCGUGg -3'
miRNA:   3'- gGGCGU-------CGACCACcuUCA-UCAGCACg -5'
6623 3' -54.6 NC_001847.1 + 36687 0.66 0.929937
Target:  5'- cCCCGCuggacgagagcGGCgUGGUGGAGGcggcuucGGUCGccGCc -3'
miRNA:   3'- -GGGCG-----------UCG-ACCACCUUCa------UCAGCa-CG- -5'
6623 3' -54.6 NC_001847.1 + 73113 0.66 0.929937
Target:  5'- gCC-CGGgUGGcGGAGGUAGccgcCGUGCu -3'
miRNA:   3'- gGGcGUCgACCaCCUUCAUCa---GCACG- -5'
6623 3' -54.6 NC_001847.1 + 43179 0.66 0.929937
Target:  5'- gCCCGgaCGGCUaacaaccaGGgccaGGAGGUgucGGUCGUGUa -3'
miRNA:   3'- -GGGC--GUCGA--------CCa---CCUUCA---UCAGCACG- -5'
6623 3' -54.6 NC_001847.1 + 23508 0.66 0.929412
Target:  5'- gCCGUucgcucgAGCUcgGGUGGggGUGGggGUGa -3'
miRNA:   3'- gGGCG-------UCGA--CCACCuuCAUCagCACg -5'
6623 3' -54.6 NC_001847.1 + 126321 0.66 0.929412
Target:  5'- gCCGUucgcucgAGCUcgGGUGGggGUGGggGUGa -3'
miRNA:   3'- gGGCG-------UCGA--CCACCuuCAUCagCACg -5'
6623 3' -54.6 NC_001847.1 + 54536 0.66 0.924577
Target:  5'- aCCGCGGCgggggcggGGgcggGGAAGacgcAGUCGcGCc -3'
miRNA:   3'- gGGCGUCGa-------CCa---CCUUCa---UCAGCaCG- -5'
6623 3' -54.6 NC_001847.1 + 74340 0.66 0.924577
Target:  5'- gCCGCAggcgcgcgcGCUGGUGGcgcgcGUGGUgGcGCg -3'
miRNA:   3'- gGGCGU---------CGACCACCuu---CAUCAgCaCG- -5'
6623 3' -54.6 NC_001847.1 + 7234 0.66 0.924577
Target:  5'- gCUGCAGC-GGcUGGucgGGUGGcUGUGCg -3'
miRNA:   3'- gGGCGUCGaCC-ACCu--UCAUCaGCACG- -5'
6623 3' -54.6 NC_001847.1 + 116441 0.66 0.924577
Target:  5'- cCCCGCGgcGCUGGcGGugacgcgGGcCGUGCu -3'
miRNA:   3'- -GGGCGU--CGACCaCCuuca---UCaGCACG- -5'
6623 3' -54.6 NC_001847.1 + 119024 0.67 0.916662
Target:  5'- aCCCGCAGgUGGggcgcacgcugugGGAAGcGGUaCGccgGCa -3'
miRNA:   3'- -GGGCGUCgACCa------------CCUUCaUCA-GCa--CG- -5'
6623 3' -54.6 NC_001847.1 + 99775 0.67 0.907034
Target:  5'- gCCGCGGCuuUGGgcgGGggGcagcgccuGUgGUGCg -3'
miRNA:   3'- gGGCGUCG--ACCa--CCuuCau------CAgCACG- -5'
6623 3' -54.6 NC_001847.1 + 63290 0.67 0.907034
Target:  5'- gCCGCuuccaccGCUGG-GGAGGg---CGUGCu -3'
miRNA:   3'- gGGCGu------CGACCaCCUUCaucaGCACG- -5'
6623 3' -54.6 NC_001847.1 + 84419 0.67 0.900703
Target:  5'- gCCGCAGCcGGUGcagc--GUCGUGUg -3'
miRNA:   3'- gGGCGUCGaCCACcuucauCAGCACG- -5'
6623 3' -54.6 NC_001847.1 + 127260 0.67 0.900703
Target:  5'- cCCgCGCGGCUaGGUGGuuuuGUGG-CG-GCc -3'
miRNA:   3'- -GG-GCGUCGA-CCACCuu--CAUCaGCaCG- -5'
6623 3' -54.6 NC_001847.1 + 65113 0.67 0.894136
Target:  5'- gCCGCGGCUcGGcUGGcGGUGGggcUCG-GCu -3'
miRNA:   3'- gGGCGUCGA-CC-ACCuUCAUC---AGCaCG- -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.