miRNA display CGI


Results 1 - 20 of 31 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
19870 3' -60.3 NC_004687.1 + 68512 0.66 0.738229
Target:  5'- uACGUCUAcaucccgggccGGGGCaaGAUCUGGCGCg- -3'
miRNA:   3'- -UGUAGAU-----------CCCCGacCUGGGCCGUGgu -5'
19870 3' -60.3 NC_004687.1 + 35226 0.66 0.738229
Target:  5'- aGC-UCgcGGGGCUGGAUgUGGCAg-- -3'
miRNA:   3'- -UGuAGauCCCCGACCUGgGCCGUggu -5'
19870 3' -60.3 NC_004687.1 + 85517 0.66 0.738229
Target:  5'- ---cCUGGaucGGCUGGGCgCCGGUGCCc -3'
miRNA:   3'- uguaGAUCc--CCGACCUG-GGCCGUGGu -5'
19870 3' -60.3 NC_004687.1 + 55118 0.66 0.738229
Target:  5'- gGCGagCUAcuGGGGCUGGACuccuCCGaGgGCCAg -3'
miRNA:   3'- -UGUa-GAU--CCCCGACCUG----GGC-CgUGGU- -5'
19870 3' -60.3 NC_004687.1 + 127595 0.66 0.738229
Target:  5'- cCAUCcGGGcGGuCUGuGACCCGGCcUCGg -3'
miRNA:   3'- uGUAGaUCC-CC-GAC-CUGGGCCGuGGU- -5'
19870 3' -60.3 NC_004687.1 + 64523 0.66 0.728637
Target:  5'- uACGUCcGGGcGGCgcugaccuggUGGAagggcucgaCCGGCGCCAu -3'
miRNA:   3'- -UGUAGaUCC-CCG----------ACCUg--------GGCCGUGGU- -5'
19870 3' -60.3 NC_004687.1 + 40981 0.66 0.718964
Target:  5'- gACGUCgac-GGCaGGugCUGGCGCCGa -3'
miRNA:   3'- -UGUAGauccCCGaCCugGGCCGUGGU- -5'
19870 3' -60.3 NC_004687.1 + 48778 0.66 0.718964
Target:  5'- gACcUCccGGGGCUcgacgaGGACgUCGGCGCCGg -3'
miRNA:   3'- -UGuAGauCCCCGA------CCUG-GGCCGUGGU- -5'
19870 3' -60.3 NC_004687.1 + 79128 0.66 0.717993
Target:  5'- -gGUCUGGGcGGCggcacggcgcaggUGGGCCCGaGUgaGCCGa -3'
miRNA:   3'- ugUAGAUCC-CCG-------------ACCUGGGC-CG--UGGU- -5'
19870 3' -60.3 NC_004687.1 + 135867 0.66 0.70922
Target:  5'- uGCGUCUGGuGGagcaguccgaGCUGGGCCCGG-GCg- -3'
miRNA:   3'- -UGUAGAUC-CC----------CGACCUGGGCCgUGgu -5'
19870 3' -60.3 NC_004687.1 + 129667 0.66 0.708242
Target:  5'- -gAUCcGGGGGUUGuaGGCCCGGUgauagauGCCGg -3'
miRNA:   3'- ugUAGaUCCCCGAC--CUGGGCCG-------UGGU- -5'
19870 3' -60.3 NC_004687.1 + 30216 0.66 0.699414
Target:  5'- cCAUCUGGGaccaGCUGGucuucgACCUGGC-CCAg -3'
miRNA:   3'- uGUAGAUCCc---CGACC------UGGGCCGuGGU- -5'
19870 3' -60.3 NC_004687.1 + 78861 0.66 0.689553
Target:  5'- gGCGUCggcGGGcgcaGCUGGuucUCUGGCGCCAu -3'
miRNA:   3'- -UGUAGau-CCC----CGACCu--GGGCCGUGGU- -5'
19870 3' -60.3 NC_004687.1 + 53308 0.66 0.687576
Target:  5'- uACGUCgcucaccuGCUGGACaCCGGCAUCAg -3'
miRNA:   3'- -UGUAGauccc---CGACCUG-GGCCGUGGU- -5'
19870 3' -60.3 NC_004687.1 + 133593 0.67 0.669704
Target:  5'- gGCuUCUcuGGGGCUGGuucccaCCGGCcccGCCAc -3'
miRNA:   3'- -UGuAGAu-CCCCGACCug----GGCCG---UGGU- -5'
19870 3' -60.3 NC_004687.1 + 135049 0.67 0.669704
Target:  5'- gGCGUCcucgacGcGGGCcaGGGCCCGGCGCgCGg -3'
miRNA:   3'- -UGUAGau----C-CCCGa-CCUGGGCCGUG-GU- -5'
19870 3' -60.3 NC_004687.1 + 6178 0.67 0.669704
Target:  5'- aGCAUCUGGGGcGUggggUGGGuCCUGGUcgugcgcgACCAg -3'
miRNA:   3'- -UGUAGAUCCC-CG----ACCU-GGGCCG--------UGGU- -5'
19870 3' -60.3 NC_004687.1 + 5543 0.67 0.649737
Target:  5'- aACcgCUGGcugacccacugcGGGCUGGAagcugacguCCUGGCGCCc -3'
miRNA:   3'- -UGuaGAUC------------CCCGACCU---------GGGCCGUGGu -5'
19870 3' -60.3 NC_004687.1 + 34396 0.67 0.649737
Target:  5'- gACccCUGGGGuGCUGccaGGCCUGGCACgAa -3'
miRNA:   3'- -UGuaGAUCCC-CGAC---CUGGGCCGUGgU- -5'
19870 3' -60.3 NC_004687.1 + 8931 0.67 0.638729
Target:  5'- cACGcCUAucGGCUGGGCCCGGUucuugaaGCCGu -3'
miRNA:   3'- -UGUaGAUccCCGACCUGGGCCG-------UGGU- -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.