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
24391 3' -54.3 NC_005264.1 + 88062 0.66 0.952922
Target:  5'- aCGGGCGccaucuuacauGUAUUGCGCcaaGCA-GUGCGc -3'
miRNA:   3'- aGCCCGC-----------UAUGAUGCG---CGUuCACGUa -5'
24391 3' -54.3 NC_005264.1 + 44149 0.66 0.948725
Target:  5'- -aGGGCaGGUAagcCGCGCGAGcGCGUa -3'
miRNA:   3'- agCCCG-CUAUgauGCGCGUUCaCGUA- -5'
24391 3' -54.3 NC_005264.1 + 154526 0.66 0.948725
Target:  5'- aCGacGGCGAcGCcGCgGCGCAGGUGCc- -3'
miRNA:   3'- aGC--CCGCUaUGaUG-CGCGUUCACGua -5'
24391 3' -54.3 NC_005264.1 + 35499 0.66 0.948725
Target:  5'- aCGacGGCGAcGCcGCgGCGCAGGUGCc- -3'
miRNA:   3'- aGC--CCGCUaUGaUG-CGCGUUCACGua -5'
24391 3' -54.3 NC_005264.1 + 48672 0.66 0.939604
Target:  5'- -gGGGCGAggagauCUGgGCGCGAGUcuGCu- -3'
miRNA:   3'- agCCCGCUau----GAUgCGCGUUCA--CGua -5'
24391 3' -54.3 NC_005264.1 + 36697 0.66 0.934676
Target:  5'- --uGGCGGauuCUGcCGCGCAAGUGCc- -3'
miRNA:   3'- agcCCGCUau-GAU-GCGCGUUCACGua -5'
24391 3' -54.3 NC_005264.1 + 123507 0.67 0.9295
Target:  5'- cUGGGCGAUguGCU-CGCGgugucCAAGUGCc- -3'
miRNA:   3'- aGCCCGCUA--UGAuGCGC-----GUUCACGua -5'
24391 3' -54.3 NC_005264.1 + 7602 0.67 0.924077
Target:  5'- gCGGGCucuGGU-CUGCGCGCA--UGCGg -3'
miRNA:   3'- aGCCCG---CUAuGAUGCGCGUucACGUa -5'
24391 3' -54.3 NC_005264.1 + 126629 0.67 0.924077
Target:  5'- gCGGGCucuGGU-CUGCGCGCA--UGCGg -3'
miRNA:   3'- aGCCCG---CUAuGAUGCGCGUucACGUa -5'
24391 3' -54.3 NC_005264.1 + 66991 0.67 0.924077
Target:  5'- cUGGGCGA-GCaACG-GCGAGUGCu- -3'
miRNA:   3'- aGCCCGCUaUGaUGCgCGUUCACGua -5'
24391 3' -54.3 NC_005264.1 + 98099 0.67 0.912486
Target:  5'- -aGGGCGAUcCU-UGCGCGGG-GCAc -3'
miRNA:   3'- agCCCGCUAuGAuGCGCGUUCaCGUa -5'
24391 3' -54.3 NC_005264.1 + 52853 0.67 0.912486
Target:  5'- gCGGGa---GCUGCGCGCAuacgacGUGCAc -3'
miRNA:   3'- aGCCCgcuaUGAUGCGCGUu-----CACGUa -5'
24391 3' -54.3 NC_005264.1 + 146512 0.67 0.899912
Target:  5'- cCGcGCGGUuccagaGCUACGCGUcgaGAGUGCGg -3'
miRNA:   3'- aGCcCGCUA------UGAUGCGCG---UUCACGUa -5'
24391 3' -54.3 NC_005264.1 + 52968 0.68 0.893262
Target:  5'- aCGcGGCGGUGCUGCGaacucagGCG-GUGCGc -3'
miRNA:   3'- aGC-CCGCUAUGAUGCg------CGUuCACGUa -5'
24391 3' -54.3 NC_005264.1 + 54214 0.68 0.886375
Target:  5'- gCGGGgGAUACggacgGCG-GCcGGUGCGUu -3'
miRNA:   3'- aGCCCgCUAUGa----UGCgCGuUCACGUA- -5'
24391 3' -54.3 NC_005264.1 + 110275 0.68 0.864335
Target:  5'- gCGGGCGAUACguuUGCuCAAGaGCAa -3'
miRNA:   3'- aGCCCGCUAUGau-GCGcGUUCaCGUa -5'
24391 3' -54.3 NC_005264.1 + 98811 0.68 0.864335
Target:  5'- aUC-GGCGGUGCUG-GUGCAcaaAGUGCAa -3'
miRNA:   3'- -AGcCCGCUAUGAUgCGCGU---UCACGUa -5'
24391 3' -54.3 NC_005264.1 + 105351 0.69 0.848547
Target:  5'- cCGGGCGGcUGCUGCaCG-AGGUGCGc -3'
miRNA:   3'- aGCCCGCU-AUGAUGcGCgUUCACGUa -5'
24391 3' -54.3 NC_005264.1 + 77994 0.69 0.848547
Target:  5'- gCGGGCGAUACcgagcagaauUGCGUGCAugacgGCGa -3'
miRNA:   3'- aGCCCGCUAUG----------AUGCGCGUuca--CGUa -5'
24391 3' -54.3 NC_005264.1 + 140223 0.69 0.848547
Target:  5'- cUCGGGCcaagACUugGCGgCGAG-GCGUg -3'
miRNA:   3'- -AGCCCGcua-UGAugCGC-GUUCaCGUA- -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.