miRNA display CGI


Results 1 - 20 of 26 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
2872 3' -55.7 NC_001493.1 + 26622 0.66 0.904784
Target:  5'- -uGCGGGUGaGGAGggcccccaaGCGACugguGCUCg -3'
miRNA:   3'- guCGCCCACaCCUUaug------CGCUG----CGAG- -5'
2872 3' -55.7 NC_001493.1 + 83864 0.66 0.870332
Target:  5'- uCGGauaGGGgagGUGGccguGUucguccggcGCGCGGCGCUCc -3'
miRNA:   3'- -GUCg--CCCa--CACCu---UA---------UGCGCUGCGAG- -5'
2872 3' -55.7 NC_001493.1 + 53403 0.66 0.868085
Target:  5'- aAGCGGGUGaaaaucgaggcgGGAGUacggggguaucuuACGCGGuugUGCUCg -3'
miRNA:   3'- gUCGCCCACa-----------CCUUA-------------UGCGCU---GCGAG- -5'
2872 3' -55.7 NC_001493.1 + 69475 0.67 0.846998
Target:  5'- aCAGCGGGUGcacuGUACG-GGCGCg- -3'
miRNA:   3'- -GUCGCCCACaccuUAUGCgCUGCGag -5'
2872 3' -55.7 NC_001493.1 + 110896 0.67 0.838812
Target:  5'- aGGUGGGUGcucGAAUGCGUGcCGCa- -3'
miRNA:   3'- gUCGCCCACac-CUUAUGCGCuGCGag -5'
2872 3' -55.7 NC_001493.1 + 37207 0.67 0.830433
Target:  5'- -cGCGGGUGaaGAGUuuCGCGugGCa- -3'
miRNA:   3'- guCGCCCACacCUUAu-GCGCugCGag -5'
2872 3' -55.7 NC_001493.1 + 10106 0.67 0.830433
Target:  5'- gCGGUGGuuuGUGaUGGu---CGCGGCGCUCc -3'
miRNA:   3'- -GUCGCC---CAC-ACCuuauGCGCUGCGAG- -5'
2872 3' -55.7 NC_001493.1 + 125660 0.67 0.830433
Target:  5'- gCGGUGGuuuGUGaUGGu---CGCGGCGCUCc -3'
miRNA:   3'- -GUCGCC---CAC-ACCuuauGCGCUGCGAG- -5'
2872 3' -55.7 NC_001493.1 + 3766 0.68 0.813128
Target:  5'- gAGUGGGUGgagaaGGAGggggcgagGCGCGGCGgUUu -3'
miRNA:   3'- gUCGCCCACa----CCUUa-------UGCGCUGCgAG- -5'
2872 3' -55.7 NC_001493.1 + 119320 0.68 0.813128
Target:  5'- gAGUGGGUGgagaaGGAGggggcgagGCGCGGCGgUUu -3'
miRNA:   3'- gUCGCCCACa----CCUUa-------UGCGCUGCgAG- -5'
2872 3' -55.7 NC_001493.1 + 15693 0.68 0.785932
Target:  5'- -uGCGGaGUGUGGAuugAUGCgcacggccguGCGACcGCUCc -3'
miRNA:   3'- guCGCC-CACACCU---UAUG----------CGCUG-CGAG- -5'
2872 3' -55.7 NC_001493.1 + 131247 0.68 0.785932
Target:  5'- -uGCGGaGUGUGGAuugAUGCgcacggccguGCGACcGCUCc -3'
miRNA:   3'- guCGCC-CACACCU---UAUG----------CGCUG-CGAG- -5'
2872 3' -55.7 NC_001493.1 + 8272 0.68 0.776571
Target:  5'- cCAGCaccgauGGGUG-GGAGccccgGCGCGGCGC-Ca -3'
miRNA:   3'- -GUCG------CCCACaCCUUa----UGCGCUGCGaG- -5'
2872 3' -55.7 NC_001493.1 + 123826 0.68 0.776571
Target:  5'- cCAGCaccgauGGGUG-GGAGccccgGCGCGGCGC-Ca -3'
miRNA:   3'- -GUCG------CCCACaCCUUa----UGCGCUGCGaG- -5'
2872 3' -55.7 NC_001493.1 + 102459 0.69 0.757462
Target:  5'- uCGGCGGGUcggGGggU-CGCGACGg-- -3'
miRNA:   3'- -GUCGCCCAca-CCuuAuGCGCUGCgag -5'
2872 3' -55.7 NC_001493.1 + 134052 0.69 0.754555
Target:  5'- -cGCGGGUGUGGGacuggguguacGUacauuauaacgagaACGCGACggauugGCUCa -3'
miRNA:   3'- guCGCCCACACCU-----------UA--------------UGCGCUG------CGAG- -5'
2872 3' -55.7 NC_001493.1 + 88331 0.7 0.67725
Target:  5'- -uGCGGGUGUGGA---UGUGG-GCUCa -3'
miRNA:   3'- guCGCCCACACCUuauGCGCUgCGAG- -5'
2872 3' -55.7 NC_001493.1 + 128383 0.7 0.666955
Target:  5'- gGGuCGGGgcgcucGGGAUAcuCGCGGCGCUCg -3'
miRNA:   3'- gUC-GCCCaca---CCUUAU--GCGCUGCGAG- -5'
2872 3' -55.7 NC_001493.1 + 12829 0.7 0.666955
Target:  5'- gGGuCGGGgcgcucGGGAUAcuCGCGGCGCUCg -3'
miRNA:   3'- gUC-GCCCaca---CCUUAU--GCGCUGCGAG- -5'
2872 3' -55.7 NC_001493.1 + 18497 0.71 0.645252
Target:  5'- -cGCGGGUGUGGGacuggguGUACGUacauuauaacgaGACGCg- -3'
miRNA:   3'- guCGCCCACACCU-------UAUGCG------------CUGCGag -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.