miRNA display CGI


Results 1 - 20 of 24 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
6748 3' -55.9 NC_001875.2 + 44111 0.66 0.881861
Target:  5'- -aGGUgGCgGCGAG-UUGUCCGCGGu -3'
miRNA:   3'- ugCCGgUGgUGCUCaGACAGGUGUUu -5'
6748 3' -55.9 NC_001875.2 + 102397 0.66 0.867055
Target:  5'- cAUGGCCGCCAgCGGGUUcuacuacuUGggCCGCGGc -3'
miRNA:   3'- -UGCCGGUGGU-GCUCAG--------ACa-GGUGUUu -5'
6748 3' -55.9 NC_001875.2 + 10697 0.66 0.864757
Target:  5'- aACGGCUggacgccccGCUcgaacgccgacucaACGAGUCUGUCgACGGGg -3'
miRNA:   3'- -UGCCGG---------UGG--------------UGCUCAGACAGgUGUUU- -5'
6748 3' -55.9 NC_001875.2 + 77279 0.66 0.859319
Target:  5'- aGCGGCCGCCGCGgcgcAGUacaUGUUUcaGCAGu -3'
miRNA:   3'- -UGCCGGUGGUGC----UCAg--ACAGG--UGUUu -5'
6748 3' -55.9 NC_001875.2 + 34911 0.66 0.859319
Target:  5'- gUGGCCGCCGCG-GUCg--CCAaCAAc -3'
miRNA:   3'- uGCCGGUGGUGCuCAGacaGGU-GUUu -5'
6748 3' -55.9 NC_001875.2 + 6677 0.66 0.857746
Target:  5'- aACGGCCGCUuCGAGccgggcuacaacCUGUCCAaCAAc -3'
miRNA:   3'- -UGCCGGUGGuGCUCa-----------GACAGGU-GUUu -5'
6748 3' -55.9 NC_001875.2 + 117946 0.66 0.851368
Target:  5'- uGCGcGCCGCCGCGuuuGGUUUgGUCgACGAc -3'
miRNA:   3'- -UGC-CGGUGGUGC---UCAGA-CAGgUGUUu -5'
6748 3' -55.9 NC_001875.2 + 67359 0.66 0.851368
Target:  5'- gGCGGCaacaACCGCGAcUC-GUCCACc-- -3'
miRNA:   3'- -UGCCGg---UGGUGCUcAGaCAGGUGuuu -5'
6748 3' -55.9 NC_001875.2 + 62834 0.66 0.851368
Target:  5'- aGCGcGCCACCACGuGcUUGcccccgcggcacUCCACAAAc -3'
miRNA:   3'- -UGC-CGGUGGUGCuCaGAC------------AGGUGUUU- -5'
6748 3' -55.9 NC_001875.2 + 46487 0.66 0.851368
Target:  5'- cGCGaacGCCGCCACGGcGUCggcGUUCGCGGc -3'
miRNA:   3'- -UGC---CGGUGGUGCU-CAGa--CAGGUGUUu -5'
6748 3' -55.9 NC_001875.2 + 13538 0.66 0.84321
Target:  5'- cCGGCCGCCuCGAccCUGUCgGCGu- -3'
miRNA:   3'- uGCCGGUGGuGCUcaGACAGgUGUuu -5'
6748 3' -55.9 NC_001875.2 + 7070 0.67 0.817564
Target:  5'- uGCGGCgaCGCCACcGGcCUGUgCGCAGAc -3'
miRNA:   3'- -UGCCG--GUGGUGcUCaGACAgGUGUUU- -5'
6748 3' -55.9 NC_001875.2 + 127089 0.67 0.817564
Target:  5'- gGCGGCCAgCAUuccAGUCUGaUCUGCGAu -3'
miRNA:   3'- -UGCCGGUgGUGc--UCAGAC-AGGUGUUu -5'
6748 3' -55.9 NC_001875.2 + 103951 0.67 0.7866
Target:  5'- gGCGGCCugUugcacacggcauuCGAGUCUG-CCAUGGAa -3'
miRNA:   3'- -UGCCGGugGu------------GCUCAGACaGGUGUUU- -5'
6748 3' -55.9 NC_001875.2 + 84648 0.68 0.771426
Target:  5'- uUGGCCACCGCGuAGUUU-UCCAUGGu -3'
miRNA:   3'- uGCCGGUGGUGC-UCAGAcAGGUGUUu -5'
6748 3' -55.9 NC_001875.2 + 77640 0.68 0.761771
Target:  5'- gACGGCCugCACGuguGUCUGguggacgCCAa--- -3'
miRNA:   3'- -UGCCGGugGUGCu--CAGACa------GGUguuu -5'
6748 3' -55.9 NC_001875.2 + 43913 0.68 0.761771
Target:  5'- gGCGGUCaugaGCUugGAGUCgcgcaccagcGUCCACAAc -3'
miRNA:   3'- -UGCCGG----UGGugCUCAGa---------CAGGUGUUu -5'
6748 3' -55.9 NC_001875.2 + 46016 0.68 0.751996
Target:  5'- uCGGCCGcCCACGcAG-CUGgccgCCGCGGAa -3'
miRNA:   3'- uGCCGGU-GGUGC-UCaGACa---GGUGUUU- -5'
6748 3' -55.9 NC_001875.2 + 96061 0.69 0.711893
Target:  5'- uGCGcGCCAUCACGGGUCaaaagGUgCACGu- -3'
miRNA:   3'- -UGC-CGGUGGUGCUCAGa----CAgGUGUuu -5'
6748 3' -55.9 NC_001875.2 + 65670 0.72 0.505747
Target:  5'- cGCGGCUAgCCAUGAGUUUGUaUCGCAGc -3'
miRNA:   3'- -UGCCGGU-GGUGCUCAGACA-GGUGUUu -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.