miRNA display CGI


Results 1 - 20 of 24 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
11465 3' -55.2 NC_003085.1 + 23806 0.66 0.719402
Target:  5'- cGGUAGUCGCaguccgcaGCACCGaagucagcgagagCCUcGGCCc -3'
miRNA:   3'- -CCAUCAGCG--------CGUGGUaua----------GGA-CCGGc -5'
11465 3' -55.2 NC_003085.1 + 31355 0.66 0.707567
Target:  5'- cGGUAGgccgccaUGCGCAgCCGcuUCCaGGCCa -3'
miRNA:   3'- -CCAUCa------GCGCGU-GGUauAGGaCCGGc -5'
11465 3' -55.2 NC_003085.1 + 48994 0.66 0.696728
Target:  5'- uGGccGUCGUGCGCUccuUgUUGGCCGg -3'
miRNA:   3'- -CCauCAGCGCGUGGuauAgGACCGGC- -5'
11465 3' -55.2 NC_003085.1 + 29520 0.66 0.696728
Target:  5'- aGG-AG-CGCGuCACCAgcGUCUUGGCgCGg -3'
miRNA:   3'- -CCaUCaGCGC-GUGGUa-UAGGACCG-GC- -5'
11465 3' -55.2 NC_003085.1 + 16176 0.66 0.683639
Target:  5'- uGGUGGcCGCGCugguucgaggugaGCCGUGaccgcgcUCCUcGCCGu -3'
miRNA:   3'- -CCAUCaGCGCG-------------UGGUAU-------AGGAcCGGC- -5'
11465 3' -55.2 NC_003085.1 + 18693 0.67 0.663879
Target:  5'- cGGUcgaGGUCGCGCugCucugCCUG-CCa -3'
miRNA:   3'- -CCA---UCAGCGCGugGuauaGGACcGGc -5'
11465 3' -55.2 NC_003085.1 + 1698 0.67 0.663879
Target:  5'- --aAGUCGC-CugCGagcgCCUGGCCGu -3'
miRNA:   3'- ccaUCAGCGcGugGUaua-GGACCGGC- -5'
11465 3' -55.2 NC_003085.1 + 24124 0.67 0.641811
Target:  5'- cGGaAG-CGCGCGCCA--UCCaccuugucggUGGCCa -3'
miRNA:   3'- -CCaUCaGCGCGUGGUauAGG----------ACCGGc -5'
11465 3' -55.2 NC_003085.1 + 47395 0.67 0.619708
Target:  5'- ---cGUCGCGuCACCG--UCCgGGCCu -3'
miRNA:   3'- ccauCAGCGC-GUGGUauAGGaCCGGc -5'
11465 3' -55.2 NC_003085.1 + 47656 0.68 0.575706
Target:  5'- --aGGggGCGCACCA-GUCCcGGCCa -3'
miRNA:   3'- ccaUCagCGCGUGGUaUAGGaCCGGc -5'
11465 3' -55.2 NC_003085.1 + 20098 0.68 0.575706
Target:  5'- cGUucuGcCGgGCgGCCAUGUCCUGGuuGa -3'
miRNA:   3'- cCAu--CaGCgCG-UGGUAUAGGACCggC- -5'
11465 3' -55.2 NC_003085.1 + 48946 0.68 0.575706
Target:  5'- gGGcAG-CGCGCAUCcgGUCC-GGCCc -3'
miRNA:   3'- -CCaUCaGCGCGUGGuaUAGGaCCGGc -5'
11465 3' -55.2 NC_003085.1 + 29333 0.68 0.575706
Target:  5'- cGGUAGcUGCGCAgCGccUCUaGGCCGg -3'
miRNA:   3'- -CCAUCaGCGCGUgGUauAGGaCCGGC- -5'
11465 3' -55.2 NC_003085.1 + 45610 0.68 0.564801
Target:  5'- ---cGUCGaCGCGCCGUgGUCCUGGauGg -3'
miRNA:   3'- ccauCAGC-GCGUGGUA-UAGGACCggC- -5'
11465 3' -55.2 NC_003085.1 + 29579 0.69 0.521806
Target:  5'- cGGUAGcccuUCGCGCucgcCCAgccGUCCagcaGGCCGa -3'
miRNA:   3'- -CCAUC----AGCGCGu---GGUa--UAGGa---CCGGC- -5'
11465 3' -55.2 NC_003085.1 + 17284 0.7 0.480139
Target:  5'- -----aCGCGCGCCAccacUGgcgcagCCUGGCCGa -3'
miRNA:   3'- ccaucaGCGCGUGGU----AUa-----GGACCGGC- -5'
11465 3' -55.2 NC_003085.1 + 47427 0.7 0.449983
Target:  5'- --aAGUCGCGCGggccaaacugcuCCAUGUCCUGcGCg- -3'
miRNA:   3'- ccaUCAGCGCGU------------GGUAUAGGAC-CGgc -5'
11465 3' -55.2 NC_003085.1 + 19714 0.71 0.420898
Target:  5'- aGGUGGggCGCGacggcgGCCAcGUCCUGGgCGa -3'
miRNA:   3'- -CCAUCa-GCGCg-----UGGUaUAGGACCgGC- -5'
11465 3' -55.2 NC_003085.1 + 38081 0.72 0.366289
Target:  5'- cGGUAG-CGCucCACCcacuugcugacgGUGUCCUGGCUGa -3'
miRNA:   3'- -CCAUCaGCGc-GUGG------------UAUAGGACCGGC- -5'
11465 3' -55.2 NC_003085.1 + 39512 0.72 0.366289
Target:  5'- cGGUGcgccucGUCGCugGCAUC--GUCCUGGCCGu -3'
miRNA:   3'- -CCAU------CAGCG--CGUGGuaUAGGACCGGC- -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.