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
11970 3' -56.2 NC_003278.1 + 17108 0.66 0.568668
Target:  5'- cGG-UGGCGUCGgcgUCUUCGgcgguggcuaccAGGCCGAUg -3'
miRNA:   3'- -CCuGCCGUAGU---GGAAGC------------UCCGGCUGu -5'
11970 3' -56.2 NC_003278.1 + 13238 0.66 0.557638
Target:  5'- uGGGCGGCcugcaccGUCACCacgacaacggcaggCGAugGGCUGACGg -3'
miRNA:   3'- -CCUGCCG-------UAGUGGaa------------GCU--CCGGCUGU- -5'
11970 3' -56.2 NC_003278.1 + 14154 0.66 0.531433
Target:  5'- cGGcGCGGCAgCGCUgaucgcggcgagCGAGGCCGGgAa -3'
miRNA:   3'- -CC-UGCCGUaGUGGaa----------GCUCCGGCUgU- -5'
11970 3' -56.2 NC_003278.1 + 20327 0.66 0.52495
Target:  5'- uGGACGccaGCGUUGCCgagCaGGGCCGugGc -3'
miRNA:   3'- -CCUGC---CGUAGUGGaa-GcUCCGGCugU- -5'
11970 3' -56.2 NC_003278.1 + 7334 0.66 0.52495
Target:  5'- cGGACGGC---ACCUgggCGAGuuCGGCAu -3'
miRNA:   3'- -CCUGCCGuagUGGAa--GCUCcgGCUGU- -5'
11970 3' -56.2 NC_003278.1 + 14229 0.67 0.514212
Target:  5'- cGGCGGCG-CGCCcggCGAgacGGCUGACc -3'
miRNA:   3'- cCUGCCGUaGUGGaa-GCU---CCGGCUGu -5'
11970 3' -56.2 NC_003278.1 + 9533 0.67 0.493015
Target:  5'- aGGcCGGCAccaUCacgGCCcUCGAGGCCGcCc -3'
miRNA:   3'- -CCuGCCGU---AG---UGGaAGCUCCGGCuGu -5'
11970 3' -56.2 NC_003278.1 + 14936 0.67 0.493015
Target:  5'- uGGCuGCGUUGCCcguaaUCGAGGCCGGu- -3'
miRNA:   3'- cCUGcCGUAGUGGa----AGCUCCGGCUgu -5'
11970 3' -56.2 NC_003278.1 + 14460 0.67 0.462001
Target:  5'- cGuCGGCGUC-C--UCGAGGCCGAUc -3'
miRNA:   3'- cCuGCCGUAGuGgaAGCUCCGGCUGu -5'
11970 3' -56.2 NC_003278.1 + 18573 0.68 0.451893
Target:  5'- cGGGCugGGCGUCACCcauUUCGAuggucucgugccGGCCG-CGa -3'
miRNA:   3'- -CCUG--CCGUAGUGG---AAGCU------------CCGGCuGU- -5'
11970 3' -56.2 NC_003278.1 + 23014 0.68 0.441906
Target:  5'- aGGAUGGCGaccagCACCgcuaccUGcAGGCCGACc -3'
miRNA:   3'- -CCUGCCGUa----GUGGaa----GC-UCCGGCUGu -5'
11970 3' -56.2 NC_003278.1 + 5033 0.68 0.441906
Target:  5'- cGACGGCcUCGCCgaccuGGCCGAa- -3'
miRNA:   3'- cCUGCCGuAGUGGaagcuCCGGCUgu -5'
11970 3' -56.2 NC_003278.1 + 21031 0.68 0.422315
Target:  5'- aGGGCGGU--CACCagCG-GGCCGAUc -3'
miRNA:   3'- -CCUGCCGuaGUGGaaGCuCCGGCUGu -5'
11970 3' -56.2 NC_003278.1 + 32373 0.68 0.412718
Target:  5'- gGGAUGGCA-CACggugcaUCG-GGCCGGCGg -3'
miRNA:   3'- -CCUGCCGUaGUGga----AGCuCCGGCUGU- -5'
11970 3' -56.2 NC_003278.1 + 2552 0.68 0.412718
Target:  5'- aGAuCGGCGUgGCCgguguugUCGuugcGGCCGGCGg -3'
miRNA:   3'- cCU-GCCGUAgUGGa------AGCu---CCGGCUGU- -5'
11970 3' -56.2 NC_003278.1 + 30986 0.7 0.329426
Target:  5'- cGGACaGGCAcgCAUCgaacagcgcugggUCGAGGCCGcGCAg -3'
miRNA:   3'- -CCUG-CCGUa-GUGGa------------AGCUCCGGC-UGU- -5'
11970 3' -56.2 NC_003278.1 + 11887 0.7 0.32455
Target:  5'- ---gGGCAUCGCCg-CG-GGCCGGCGc -3'
miRNA:   3'- ccugCCGUAGUGGaaGCuCCGGCUGU- -5'
11970 3' -56.2 NC_003278.1 + 28257 0.7 0.308689
Target:  5'- aGGCGGCGgguuCCUugUCGGuGGCCGGCGa -3'
miRNA:   3'- cCUGCCGUagu-GGA--AGCU-CCGGCUGU- -5'
11970 3' -56.2 NC_003278.1 + 13424 0.7 0.308689
Target:  5'- cGGGCGGCAUCGaguaUCGgcucggacuccGGGCCGAUg -3'
miRNA:   3'- -CCUGCCGUAGUgga-AGC-----------UCCGGCUGu -5'
11970 3' -56.2 NC_003278.1 + 21437 0.71 0.300983
Target:  5'- uGGGCGGguUCACCau---GGCCGGCc -3'
miRNA:   3'- -CCUGCCguAGUGGaagcuCCGGCUGu -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.