miRNA display CGI


Results 1 - 20 of 25 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
23322 5' -56.3 NC_005259.1 + 42090 0.66 0.708253
Target:  5'- aGUCGGUCCGGUCAuugguccugcgaAGCuGUGUGGuCAGc -3'
miRNA:   3'- -CAGCUAGGCCGGU------------UCG-CGUACUcGUC- -5'
23322 5' -56.3 NC_005259.1 + 5429 0.66 0.683662
Target:  5'- cGUCGAggUCUGcGCCcgcugccgccgacaGAuCGCAUGAGCAGc -3'
miRNA:   3'- -CAGCU--AGGC-CGG--------------UUcGCGUACUCGUC- -5'
23322 5' -56.3 NC_005259.1 + 50142 0.66 0.676122
Target:  5'- -gCGAUUgguUGGCgAuccGGCGCGUGAGCGa -3'
miRNA:   3'- caGCUAG---GCCGgU---UCGCGUACUCGUc -5'
23322 5' -56.3 NC_005259.1 + 52572 0.67 0.654479
Target:  5'- gGUCGAccggaCCGGCCuGAGCGUcgccGAGCAc -3'
miRNA:   3'- -CAGCUa----GGCCGG-UUCGCGua--CUCGUc -5'
23322 5' -56.3 NC_005259.1 + 38894 0.67 0.654479
Target:  5'- -aCGAcgCUGGCCGgaauguucaucAGCGCuUGAGCAc -3'
miRNA:   3'- caGCUa-GGCCGGU-----------UCGCGuACUCGUc -5'
23322 5' -56.3 NC_005259.1 + 21088 0.67 0.653394
Target:  5'- uGUCGAcgCUGGCCAAGCuCAUggaagaaaaagccGAGCGa -3'
miRNA:   3'- -CAGCUa-GGCCGGUUCGcGUA-------------CUCGUc -5'
23322 5' -56.3 NC_005259.1 + 58460 0.67 0.643623
Target:  5'- -gUGAUCgCGGCCAccAGUGCGUG-GCu- -3'
miRNA:   3'- caGCUAG-GCCGGU--UCGCGUACuCGuc -5'
23322 5' -56.3 NC_005259.1 + 68862 0.67 0.643623
Target:  5'- uGUCGAcuugcCCGcGCCGGGCGCGccgaUGAgGUAGa -3'
miRNA:   3'- -CAGCUa----GGC-CGGUUCGCGU----ACU-CGUC- -5'
23322 5' -56.3 NC_005259.1 + 51138 0.67 0.643623
Target:  5'- cGUCGGggCGGCCAugAGCGCGUucGGGUu- -3'
miRNA:   3'- -CAGCUagGCCGGU--UCGCGUA--CUCGuc -5'
23322 5' -56.3 NC_005259.1 + 30903 0.67 0.643623
Target:  5'- -gCGAggugugCCGGUUGAGCGU--GAGCAGg -3'
miRNA:   3'- caGCUa-----GGCCGGUUCGCGuaCUCGUC- -5'
23322 5' -56.3 NC_005259.1 + 40354 0.67 0.632757
Target:  5'- cUCGAUgaugaaCCGcGCCGAGgGCAUGAGg-- -3'
miRNA:   3'- cAGCUA------GGC-CGGUUCgCGUACUCguc -5'
23322 5' -56.3 NC_005259.1 + 26818 0.67 0.632757
Target:  5'- -cCGGUaCCGGCgguGGUGCcgGGGCGGu -3'
miRNA:   3'- caGCUA-GGCCGgu-UCGCGuaCUCGUC- -5'
23322 5' -56.3 NC_005259.1 + 5051 0.67 0.621889
Target:  5'- cGUUGAUCaCGGUCGAGauCGUGGGcCGGg -3'
miRNA:   3'- -CAGCUAG-GCCGGUUCgcGUACUC-GUC- -5'
23322 5' -56.3 NC_005259.1 + 3066 0.67 0.611031
Target:  5'- cGUCGAcgggCCgaGGCCGAcaagagagccGCGCAgcgaUGAGCGGg -3'
miRNA:   3'- -CAGCUa---GG--CCGGUU----------CGCGU----ACUCGUC- -5'
23322 5' -56.3 NC_005259.1 + 9594 0.67 0.611031
Target:  5'- cGUCGGUCUGGCCGuagAGCacCGUG-GCAu -3'
miRNA:   3'- -CAGCUAGGCCGGU---UCGc-GUACuCGUc -5'
23322 5' -56.3 NC_005259.1 + 34872 0.68 0.567862
Target:  5'- cGUCGGUgCCGGaCCgGGGUGCcucGGGCAGg -3'
miRNA:   3'- -CAGCUA-GGCC-GG-UUCGCGua-CUCGUC- -5'
23322 5' -56.3 NC_005259.1 + 26507 0.68 0.567862
Target:  5'- cUCGccgcCCGGCgagaaGAGCGCGgUGAGCAGc -3'
miRNA:   3'- cAGCua--GGCCGg----UUCGCGU-ACUCGUC- -5'
23322 5' -56.3 NC_005259.1 + 58548 0.68 0.567862
Target:  5'- cGUCGAgguuaCGGCuCGGGCGguUGGGcCGGa -3'
miRNA:   3'- -CAGCUag---GCCG-GUUCGCguACUC-GUC- -5'
23322 5' -56.3 NC_005259.1 + 33384 0.69 0.53599
Target:  5'- -cCGGUCC-GCCGAGCGCGacGAGCc- -3'
miRNA:   3'- caGCUAGGcCGGUUCGCGUa-CUCGuc -5'
23322 5' -56.3 NC_005259.1 + 54237 0.69 0.525501
Target:  5'- gGUCGGUCCuccuaaGUCGGGCGCGUGAacGCGc -3'
miRNA:   3'- -CAGCUAGGc-----CGGUUCGCGUACU--CGUc -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.