miRNA display CGI


Results 1 - 20 of 42 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
23922 3' -62 NC_005262.1 + 90 0.68 0.30619
Target:  5'- gGCCGCgCCGCacGCuucUGCGCAUGUcaCCGg -3'
miRNA:   3'- -CGGCG-GGCGa-CGcc-ACGCGUACA--GGC- -5'
23922 3' -62 NC_005262.1 + 1471 0.66 0.437189
Target:  5'- cGCCGCCCGCucgucUGCcg-GCGC-UG-CCGc -3'
miRNA:   3'- -CGGCGGGCG-----ACGccaCGCGuACaGGC- -5'
23922 3' -62 NC_005262.1 + 3170 0.72 0.160709
Target:  5'- cGCCGCUCGCcaGC-GUGCGCAUGgcguucgCCGu -3'
miRNA:   3'- -CGGCGGGCGa-CGcCACGCGUACa------GGC- -5'
23922 3' -62 NC_005262.1 + 4411 0.66 0.398024
Target:  5'- cGCgCGCCUGCUGCGcGaGCGCcUGgagcucggcguugCCGg -3'
miRNA:   3'- -CG-GCGGGCGACGC-CaCGCGuACa------------GGC- -5'
23922 3' -62 NC_005262.1 + 5065 0.73 0.137437
Target:  5'- gGCagGCCCGCgGCGGcgGCGCGUGcgaCCGg -3'
miRNA:   3'- -CGg-CGGGCGaCGCCa-CGCGUACa--GGC- -5'
23922 3' -62 NC_005262.1 + 7199 0.66 0.437189
Target:  5'- cGUCGCCCacGC-GCGGaUGCGCAccugcuUGUUCu -3'
miRNA:   3'- -CGGCGGG--CGaCGCC-ACGCGU------ACAGGc -5'
23922 3' -62 NC_005262.1 + 8399 0.73 0.152185
Target:  5'- aGCUGCUCGaUGCGGcgcucgaucugcuUGCGCGUGaUCCGg -3'
miRNA:   3'- -CGGCGGGCgACGCC-------------ACGCGUAC-AGGC- -5'
23922 3' -62 NC_005262.1 + 12791 0.67 0.359566
Target:  5'- -aCGCCCGUgagcauuggGCGGcGCGCAg--CCGg -3'
miRNA:   3'- cgGCGGGCGa--------CGCCaCGCGUacaGGC- -5'
23922 3' -62 NC_005262.1 + 13444 0.72 0.169224
Target:  5'- cGCCGCUCGCggucgucGCGG-GCGCuucGUCCu -3'
miRNA:   3'- -CGGCGGGCGa------CGCCaCGCGua-CAGGc -5'
23922 3' -62 NC_005262.1 + 14056 0.66 0.401491
Target:  5'- cGCCGCCgGCgucggUGCGGcuucgGCcGCcgGUUCGc -3'
miRNA:   3'- -CGGCGGgCG-----ACGCCa----CG-CGuaCAGGC- -5'
23922 3' -62 NC_005262.1 + 16094 0.68 0.299079
Target:  5'- cGCCGCCCgGC-GCGGUGCuugGCGUcaGaCCGc -3'
miRNA:   3'- -CGGCGGG-CGaCGCCACG---CGUA--CaGGC- -5'
23922 3' -62 NC_005262.1 + 18805 0.68 0.33592
Target:  5'- cGCCGCCUGCcgcGCGGacUGCuGCAcGUCgGc -3'
miRNA:   3'- -CGGCGGGCGa--CGCC--ACG-CGUaCAGgC- -5'
23922 3' -62 NC_005262.1 + 21787 0.67 0.367703
Target:  5'- gGCCGCCCGauucgagGCGG-GCGUucGUCgCGu -3'
miRNA:   3'- -CGGCGGGCga-----CGCCaCGCGuaCAG-GC- -5'
23922 3' -62 NC_005262.1 + 22345 0.66 0.409361
Target:  5'- cCCGCacuucucuaugauCCGC-GUGGUGCGgaggGUGUCCGg -3'
miRNA:   3'- cGGCG-------------GGCGaCGCCACGCg---UACAGGC- -5'
23922 3' -62 NC_005262.1 + 23265 0.68 0.30619
Target:  5'- aGCCGCCCGCcGCGacgaugaacuuGUcGCGCAgGUCg- -3'
miRNA:   3'- -CGGCGGGCGaCGC-----------CA-CGCGUaCAGgc -5'
23922 3' -62 NC_005262.1 + 23563 0.69 0.292097
Target:  5'- aCCGCCCGCcgcgcGCGG-GCGCAggagaucgCCGu -3'
miRNA:   3'- cGGCGGGCGa----CGCCaCGCGUaca-----GGC- -5'
23922 3' -62 NC_005262.1 + 23678 0.72 0.164917
Target:  5'- uGCCGCCCGa-GCGGcGCGUGUGggucuaCCGg -3'
miRNA:   3'- -CGGCGGGCgaCGCCaCGCGUACa-----GGC- -5'
23922 3' -62 NC_005262.1 + 23854 0.75 0.099936
Target:  5'- cGCCGCCC-UUGcCGGUGcCGCccGUCCGg -3'
miRNA:   3'- -CGGCGGGcGAC-GCCAC-GCGuaCAGGC- -5'
23922 3' -62 NC_005262.1 + 28291 0.67 0.350763
Target:  5'- uGUCGCCuaugCGCgcaaGCGcGUGCGCAUGaucgaggcaugguUCCGg -3'
miRNA:   3'- -CGGCGG----GCGa---CGC-CACGCGUAC-------------AGGC- -5'
23922 3' -62 NC_005262.1 + 31660 1.09 0.000285
Target:  5'- uGCCGCCCGCUGCGGUGCGCAUGUCCGu -3'
miRNA:   3'- -CGGCGGGCGACGCCACGCGUACAGGC- -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.