miRNA display CGI


Results 1 - 20 of 21 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
30640 5' -59.7 NC_006549.1 + 5437 0.66 0.743076
Target:  5'- gGGCAGGGU--GGCGGGcg-CGCUAGc -3'
miRNA:   3'- -CCGUCCCGggUCGCCCuugGUGAUCc -5'
30640 5' -59.7 NC_006549.1 + 7031 0.66 0.72393
Target:  5'- cGC-GGGCCC-GCGGGggUUAg-GGGa -3'
miRNA:   3'- cCGuCCCGGGuCGCCCuuGGUgaUCC- -5'
30640 5' -59.7 NC_006549.1 + 6669 0.66 0.72393
Target:  5'- aGGaauGGGaCCCA-CGGGAcCCGCUGGc -3'
miRNA:   3'- -CCgu-CCC-GGGUcGCCCUuGGUGAUCc -5'
30640 5' -59.7 NC_006549.1 + 40656 0.67 0.71424
Target:  5'- cGGCagaggAGGGCCCAGaggagaaaCGGGGGacaccggccCCAC-AGGg -3'
miRNA:   3'- -CCG-----UCCCGGGUC--------GCCCUU---------GGUGaUCC- -5'
30640 5' -59.7 NC_006549.1 + 7528 0.67 0.71424
Target:  5'- cGguGGGCCCucaGGG-GCCAgaGGGa -3'
miRNA:   3'- cCguCCCGGGucgCCCuUGGUgaUCC- -5'
30640 5' -59.7 NC_006549.1 + 41682 0.67 0.664957
Target:  5'- gGGCccgcGGGCCCAGCaGGAGacaaaggagacUCGgUAGGu -3'
miRNA:   3'- -CCGu---CCCGGGUCGcCCUU-----------GGUgAUCC- -5'
30640 5' -59.7 NC_006549.1 + 6769 0.68 0.635017
Target:  5'- cGGUuaAGGGaCCC-GCGGGu-CCGCaAGGg -3'
miRNA:   3'- -CCG--UCCC-GGGuCGCCCuuGGUGaUCC- -5'
30640 5' -59.7 NC_006549.1 + 82838 0.68 0.635017
Target:  5'- gGGguGGGUauCC-GCGGGAGCCggcGCUGccGGa -3'
miRNA:   3'- -CCguCCCG--GGuCGCCCUUGG---UGAU--CC- -5'
30640 5' -59.7 NC_006549.1 + 41818 0.68 0.625023
Target:  5'- gGGCccgagAGGGCCC-GCGGGu-CCAUccGGa -3'
miRNA:   3'- -CCG-----UCCCGGGuCGCCCuuGGUGauCC- -5'
30640 5' -59.7 NC_006549.1 + 41639 0.68 0.625023
Target:  5'- cGCcuGGGGUCCAGgGaccaccGGGACCACaGGGa -3'
miRNA:   3'- cCG--UCCCGGGUCgC------CCUUGGUGaUCC- -5'
30640 5' -59.7 NC_006549.1 + 95281 0.68 0.615033
Target:  5'- aGCGGGGaUCUAgGCGGGGgcGCCGCUAu- -3'
miRNA:   3'- cCGUCCC-GGGU-CGCCCU--UGGUGAUcc -5'
30640 5' -59.7 NC_006549.1 + 6965 0.69 0.595099
Target:  5'- gGGCcucAGGGCCCAgaggguccuGCGGGucCCA-UGGGu -3'
miRNA:   3'- -CCG---UCCCGGGU---------CGCCCuuGGUgAUCC- -5'
30640 5' -59.7 NC_006549.1 + 40896 0.69 0.589136
Target:  5'- cGGCGGGaGCCuCGGCcccccugguccgaaGGGGCCACaAGGa -3'
miRNA:   3'- -CCGUCC-CGG-GUCGc-------------CCUUGGUGaUCC- -5'
30640 5' -59.7 NC_006549.1 + 68805 0.7 0.536114
Target:  5'- aGGCAGGGaCCUA-CGGGuACCACa--- -3'
miRNA:   3'- -CCGUCCC-GGGUcGCCCuUGGUGaucc -5'
30640 5' -59.7 NC_006549.1 + 49812 0.7 0.49793
Target:  5'- uGGUcccguGGGCCCAGCuGGGcCCAC-GGGa -3'
miRNA:   3'- -CCGu----CCCGGGUCGcCCUuGGUGaUCC- -5'
30640 5' -59.7 NC_006549.1 + 50475 0.71 0.434296
Target:  5'- cGCGGGGCCaacgaGGCcaauGGGAcCCACUGGc -3'
miRNA:   3'- cCGUCCCGGg----UCG----CCCUuGGUGAUCc -5'
30640 5' -59.7 NC_006549.1 + 7109 0.72 0.416993
Target:  5'- gGGCccauGGGCCCAGuCGGGcuCCA--GGGg -3'
miRNA:   3'- -CCGu---CCCGGGUC-GCCCuuGGUgaUCC- -5'
30640 5' -59.7 NC_006549.1 + 50811 0.73 0.3364
Target:  5'- uGGCAgccccuuGGGUCCuGGCGGGc-CCGCUGGGc -3'
miRNA:   3'- -CCGU-------CCCGGG-UCGCCCuuGGUGAUCC- -5'
30640 5' -59.7 NC_006549.1 + 49865 0.74 0.308469
Target:  5'- gGGCccgGGGGCCCAG-GGGGGCCcggAGGc -3'
miRNA:   3'- -CCG---UCCCGGGUCgCCCUUGGugaUCC- -5'
30640 5' -59.7 NC_006549.1 + 7731 0.76 0.238769
Target:  5'- aGGUccccaGGGGCCCAGgGGGGccgauggGCCGCaGGGa -3'
miRNA:   3'- -CCG-----UCCCGGGUCgCCCU-------UGGUGaUCC- -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.