miRNA display CGI


Results 1 - 20 of 40 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
18693 3' -59.1 NC_004682.1 + 13702 1.09 0.000356
Target:  5'- uCGGCGCACCGCCCGCAUCGACUACACg -3'
miRNA:   3'- -GCCGCGUGGCGGGCGUAGCUGAUGUG- -5'
18693 3' -59.1 NC_004682.1 + 39817 0.82 0.038055
Target:  5'- -aGCGCGCCGCCCGaugccUCGGCUGCGCu -3'
miRNA:   3'- gcCGCGUGGCGGGCgu---AGCUGAUGUG- -5'
18693 3' -59.1 NC_004682.1 + 19965 0.78 0.075427
Target:  5'- gCGGC-CAUCGCCCGCAacgCGACUGcCGCg -3'
miRNA:   3'- -GCCGcGUGGCGGGCGUa--GCUGAU-GUG- -5'
18693 3' -59.1 NC_004682.1 + 35112 0.73 0.181615
Target:  5'- cCGGCGCacACCGCCgGCcaccaCGcACUGCGCg -3'
miRNA:   3'- -GCCGCG--UGGCGGgCGua---GC-UGAUGUG- -5'
18693 3' -59.1 NC_004682.1 + 39626 0.72 0.201775
Target:  5'- uCGaGCGCACaagcgcaaGCCgUGCGUCGACUGCGu -3'
miRNA:   3'- -GC-CGCGUGg-------CGG-GCGUAGCUGAUGUg -5'
18693 3' -59.1 NC_004682.1 + 28298 0.72 0.216459
Target:  5'- gGGCGUuggccucggcauggACUGCCaCGCAUCGACccACGCc -3'
miRNA:   3'- gCCGCG--------------UGGCGG-GCGUAGCUGa-UGUG- -5'
18693 3' -59.1 NC_004682.1 + 9993 0.71 0.254294
Target:  5'- gCGGCGUA-CGUCgGCGUCGACggauCGCg -3'
miRNA:   3'- -GCCGCGUgGCGGgCGUAGCUGau--GUG- -5'
18693 3' -59.1 NC_004682.1 + 41328 0.71 0.260777
Target:  5'- cCGGuCGgAcCCGUCCGgGcUCGACUACGCg -3'
miRNA:   3'- -GCC-GCgU-GGCGGGCgU-AGCUGAUGUG- -5'
18693 3' -59.1 NC_004682.1 + 36867 0.7 0.288057
Target:  5'- aGGCGacgaucuuCGCCGCCCGCcugAUCGGCUugcuCAg -3'
miRNA:   3'- gCCGC--------GUGGCGGGCG---UAGCUGAu---GUg -5'
18693 3' -59.1 NC_004682.1 + 12336 0.7 0.288057
Target:  5'- aCGGauCGCGCCGaCCUGCucgguguagGUCGACUcCACg -3'
miRNA:   3'- -GCC--GCGUGGC-GGGCG---------UAGCUGAuGUG- -5'
18693 3' -59.1 NC_004682.1 + 23187 0.69 0.317531
Target:  5'- uGGUGaCugCGCCaCGCggCGACcGCACc -3'
miRNA:   3'- gCCGC-GugGCGG-GCGuaGCUGaUGUG- -5'
18693 3' -59.1 NC_004682.1 + 13852 0.69 0.332307
Target:  5'- aGGCcaaccugGCACagGCCCGCGcaUCGACgcgcugGCACa -3'
miRNA:   3'- gCCG-------CGUGg-CGGGCGU--AGCUGa-----UGUG- -5'
18693 3' -59.1 NC_004682.1 + 14590 0.69 0.341089
Target:  5'- uCGGCuacguguaCACCGCCCcgguggGCA-CGGCUGCGCc -3'
miRNA:   3'- -GCCGc-------GUGGCGGG------CGUaGCUGAUGUG- -5'
18693 3' -59.1 NC_004682.1 + 28099 0.68 0.357484
Target:  5'- gGGCGUgGCUGCUCGCggCGGCgaGCGCg -3'
miRNA:   3'- gCCGCG-UGGCGGGCGuaGCUGa-UGUG- -5'
18693 3' -59.1 NC_004682.1 + 14224 0.68 0.357484
Target:  5'- aGGCaGCGCCGCCCGgAggaUCGGgaGgACg -3'
miRNA:   3'- gCCG-CGUGGCGGGCgU---AGCUgaUgUG- -5'
18693 3' -59.1 NC_004682.1 + 6442 0.68 0.357484
Target:  5'- aGGUguacuugucgaGCACCGCCCGCGcCGugUcgGCg -3'
miRNA:   3'- gCCG-----------CGUGGCGGGCGUaGCugAugUG- -5'
18693 3' -59.1 NC_004682.1 + 44040 0.68 0.360829
Target:  5'- gCGGUGCcCCuacagcuacaagcugGCCCGCGUCGACa---- -3'
miRNA:   3'- -GCCGCGuGG---------------CGGGCGUAGCUGaugug -5'
18693 3' -59.1 NC_004682.1 + 6153 0.68 0.363351
Target:  5'- aCGGCGgGCCG-CUGCGagucgacggcuauuUCGGCUACGa -3'
miRNA:   3'- -GCCGCgUGGCgGGCGU--------------AGCUGAUGUg -5'
18693 3' -59.1 NC_004682.1 + 43980 0.68 0.365886
Target:  5'- aGGgGCACCGCUCGUAcugcUUGAgCUgagACACg -3'
miRNA:   3'- gCCgCGUGGCGGGCGU----AGCU-GA---UGUG- -5'
18693 3' -59.1 NC_004682.1 + 44147 0.68 0.38135
Target:  5'- aGGCuuggaguuccacCACCGCCUGCggCGGCUuCACa -3'
miRNA:   3'- gCCGc-----------GUGGCGGGCGuaGCUGAuGUG- -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.