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 + 83 0.66 0.486704
Target:  5'- aGGCucagaGCCGCCCucGCGggCGACUGgACa -3'
miRNA:   3'- gCCGcg---UGGCGGG--CGUa-GCUGAUgUG- -5'
18693 3' -59.1 NC_004682.1 + 2021 0.67 0.457053
Target:  5'- aCGGCGCAcCCGUCCaggGUGUCGAggguCcACGCg -3'
miRNA:   3'- -GCCGCGU-GGCGGG---CGUAGCU----GaUGUG- -5'
18693 3' -59.1 NC_004682.1 + 3213 0.66 0.465848
Target:  5'- gCGGCugcuGCGCCGCCUGCGccagugaUCGACc---- -3'
miRNA:   3'- -GCCG----CGUGGCGGGCGU-------AGCUGaugug -5'
18693 3' -59.1 NC_004682.1 + 3566 0.66 0.506969
Target:  5'- aGGCGggggguuCACCGUCCGCucccggcccagcaGGCUGCAUg -3'
miRNA:   3'- gCCGC-------GUGGCGGGCGuag----------CUGAUGUG- -5'
18693 3' -59.1 NC_004682.1 + 4713 0.67 0.437833
Target:  5'- aGGUGCuggaucGCCGUgugCCGCAggCGcGCUACACg -3'
miRNA:   3'- gCCGCG------UGGCG---GGCGUa-GC-UGAUGUG- -5'
18693 3' -59.1 NC_004682.1 + 5885 0.66 0.486704
Target:  5'- uCGaGCGCGuuGCUCGCGaCGGCgucCACc -3'
miRNA:   3'- -GC-CGCGUggCGGGCGUaGCUGau-GUG- -5'
18693 3' -59.1 NC_004682.1 + 6017 0.66 0.466831
Target:  5'- uGGCcagccaGCGCCGCCCuugcCGUCGAgCUGCu- -3'
miRNA:   3'- gCCG------CGUGGCGGGc---GUAGCU-GAUGug -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 + 6442 0.68 0.357484
Target:  5'- aGGUguacuugucgaGCACCGCCCGCGcCGugUcgGCg -3'
miRNA:   3'- gCCG-----------CGUGGCGGGCGUaGCugAugUG- -5'
18693 3' -59.1 NC_004682.1 + 8307 0.68 0.391899
Target:  5'- uGGaCGcCACCGUCCGC-UCGAUguuCGCc -3'
miRNA:   3'- gCC-GC-GUGGCGGGCGuAGCUGau-GUG- -5'
18693 3' -59.1 NC_004682.1 + 9287 0.67 0.427462
Target:  5'- uGGCGCggAUgGCUCGCAucaccugUCGGgUGCGCg -3'
miRNA:   3'- gCCGCG--UGgCGGGCGU-------AGCUgAUGUG- -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 + 10599 0.68 0.400833
Target:  5'- -cGCGCACUGCUCGUAgcgCGAcCUGgGCc -3'
miRNA:   3'- gcCGCGUGGCGGGCGUa--GCU-GAUgUG- -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 + 13702 1.09 0.000356
Target:  5'- uCGGCGCACCGCCCGCAUCGACUACACg -3'
miRNA:   3'- -GCCGCGUGGCGGGCGUAGCUGAUGUG- -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 + 14224 0.68 0.357484
Target:  5'- aGGCaGCGCCGCCCGgAggaUCGGgaGgACg -3'
miRNA:   3'- gCCG-CGUGGCGGGCgU---AGCUgaUgUG- -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 + 15063 0.67 0.428399
Target:  5'- cCGGCGCACCgacGCCUuguggGCGUgGAagccgACACg -3'
miRNA:   3'- -GCCGCGUGG---CGGG-----CGUAgCUga---UGUG- -5'
18693 3' -59.1 NC_004682.1 + 16898 0.66 0.476716
Target:  5'- uCGGCGCguucGgUGCCgGUGUCGGCgcugugGCGCu -3'
miRNA:   3'- -GCCGCG----UgGCGGgCGUAGCUGa-----UGUG- -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.