miRNA display CGI


Results 1 - 20 of 29 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
17191 3' -54.9 NC_004333.2 + 36106 1.1 0.000858
Target:  5'- cCAGCCACGUACGCAAGGUUGGCGACGg -3'
miRNA:   3'- -GUCGGUGCAUGCGUUCCAACCGCUGC- -5'
17191 3' -54.9 NC_004333.2 + 8886 0.81 0.089433
Target:  5'- uUAGCCGCGcaccuugaucUugGCGAGGUUGGCGuCGa -3'
miRNA:   3'- -GUCGGUGC----------AugCGUUCCAACCGCuGC- -5'
17191 3' -54.9 NC_004333.2 + 27174 0.74 0.256221
Target:  5'- uCAGCCauGCGUGCcccCGAGGUgUGGCGGCa -3'
miRNA:   3'- -GUCGG--UGCAUGc--GUUCCA-ACCGCUGc -5'
17191 3' -54.9 NC_004333.2 + 23747 0.72 0.33833
Target:  5'- cCGGCCACG-AUGCAgccgccggAGGccGGCGGCGu -3'
miRNA:   3'- -GUCGGUGCaUGCGU--------UCCaaCCGCUGC- -5'
17191 3' -54.9 NC_004333.2 + 25984 0.72 0.363807
Target:  5'- aUAGCUACGUgcaaGCGCAGGGc-GGCGAa- -3'
miRNA:   3'- -GUCGGUGCA----UGCGUUCCaaCCGCUgc -5'
17191 3' -54.9 NC_004333.2 + 9518 0.71 0.399789
Target:  5'- -cGCCugGUGCGCAGGac-GGCGAa- -3'
miRNA:   3'- guCGGugCAUGCGUUCcaaCCGCUgc -5'
17191 3' -54.9 NC_004333.2 + 28763 0.71 0.418613
Target:  5'- -cGCCGCGUcgaccGCGC-GGGUcgcGGCGGCGc -3'
miRNA:   3'- guCGGUGCA-----UGCGuUCCAa--CCGCUGC- -5'
17191 3' -54.9 NC_004333.2 + 31229 0.71 0.428224
Target:  5'- gGGCgGCGaUGC-CAAGGcgGGCGGCGa -3'
miRNA:   3'- gUCGgUGC-AUGcGUUCCaaCCGCUGC- -5'
17191 3' -54.9 NC_004333.2 + 22079 0.7 0.457819
Target:  5'- -cGCCAgGaaagagGCGCccAGGUUGGCGACc -3'
miRNA:   3'- guCGGUgCa-----UGCGu-UCCAACCGCUGc -5'
17191 3' -54.9 NC_004333.2 + 27489 0.7 0.457819
Target:  5'- aCAGCCGuCGccGCGCAGGGUUacGGCaaacauGACGg -3'
miRNA:   3'- -GUCGGU-GCa-UGCGUUCCAA--CCG------CUGC- -5'
17191 3' -54.9 NC_004333.2 + 43408 0.7 0.467926
Target:  5'- gCAGCCGCccGCGCAggcagacgcucGGGUcgGGCuGACGg -3'
miRNA:   3'- -GUCGGUGcaUGCGU-----------UCCAa-CCG-CUGC- -5'
17191 3' -54.9 NC_004333.2 + 32271 0.69 0.488474
Target:  5'- aAGCCuucCGgaugGCGC-GGGUcGGCGGCGa -3'
miRNA:   3'- gUCGGu--GCa---UGCGuUCCAaCCGCUGC- -5'
17191 3' -54.9 NC_004333.2 + 20848 0.69 0.507323
Target:  5'- gCGGCCGCGcauccugcucgaACGCcacAAGGUaugGGCGGCGa -3'
miRNA:   3'- -GUCGGUGCa-----------UGCG---UUCCAa--CCGCUGC- -5'
17191 3' -54.9 NC_004333.2 + 779 0.69 0.509436
Target:  5'- -cGCCACG-GCGCucgcGGgcGGCGGCa -3'
miRNA:   3'- guCGGUGCaUGCGuu--CCaaCCGCUGc -5'
17191 3' -54.9 NC_004333.2 + 9661 0.69 0.541554
Target:  5'- -uGCCGCGccggcugGCGCugAAGG-UGGCGGCa -3'
miRNA:   3'- guCGGUGCa------UGCG--UUCCaACCGCUGc -5'
17191 3' -54.9 NC_004333.2 + 32171 0.68 0.596418
Target:  5'- cCGGCCACGcgcuuacuCGcCGAGGUUcaGGaCGACGa -3'
miRNA:   3'- -GUCGGUGCau------GC-GUUCCAA--CC-GCUGC- -5'
17191 3' -54.9 NC_004333.2 + 47793 0.67 0.61864
Target:  5'- aGGCCACGgcGCGCGAcGUgccGGCGAgCGu -3'
miRNA:   3'- gUCGGUGCa-UGCGUUcCAa--CCGCU-GC- -5'
17191 3' -54.9 NC_004333.2 + 16617 0.67 0.61864
Target:  5'- aGGCaCAUGUGCGCAuacGGUcGGUGAg- -3'
miRNA:   3'- gUCG-GUGCAUGCGUu--CCAaCCGCUgc -5'
17191 3' -54.9 NC_004333.2 + 45017 0.67 0.629775
Target:  5'- cCGGCCGCucgaccGCGCGuGGcgcUGGCGGCGc -3'
miRNA:   3'- -GUCGGUGca----UGCGUuCCa--ACCGCUGC- -5'
17191 3' -54.9 NC_004333.2 + 37440 0.67 0.639798
Target:  5'- aCGGCCGCGcgACGCGgugcacgucgcguAGccagGGCGACGc -3'
miRNA:   3'- -GUCGGUGCa-UGCGU-------------UCcaa-CCGCUGC- -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.