miRNA display CGI


Results 1 - 20 of 88 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
31139 3' -56.8 NC_006560.1 + 146773 0.66 0.894063
Target:  5'- -gGCCCGCgccuGAGUCGggGucuGGGUcuGGGUc -3'
miRNA:   3'- agUGGGUG----CUCAGCuuC---CCCA--UCCGu -5'
31139 3' -56.8 NC_006560.1 + 117284 0.66 0.894063
Target:  5'- -uGCCCuGCGGG--GGAGGGG-GGGCAg -3'
miRNA:   3'- agUGGG-UGCUCagCUUCCCCaUCCGU- -5'
31139 3' -56.8 NC_006560.1 + 69449 0.66 0.894063
Target:  5'- -aGgCCGCGGGgcuggCGggGGGcGUccugAGGCAg -3'
miRNA:   3'- agUgGGUGCUCa----GCuuCCC-CA----UCCGU- -5'
31139 3' -56.8 NC_006560.1 + 26489 0.66 0.894063
Target:  5'- -gGCCCcgGCGGGgggcgggcgcgCGAGGGGGcggGGGCc -3'
miRNA:   3'- agUGGG--UGCUCa----------GCUUCCCCa--UCCGu -5'
31139 3' -56.8 NC_006560.1 + 54533 0.66 0.894063
Target:  5'- cCGCCgACGccGUCcGAGGGGcgcAGGCAg -3'
miRNA:   3'- aGUGGgUGCu-CAGcUUCCCCa--UCCGU- -5'
31139 3' -56.8 NC_006560.1 + 79786 0.66 0.894063
Target:  5'- -aGCCCccucuCGAGUCGAcucucucgauGGGGGgcgcgguGGCGc -3'
miRNA:   3'- agUGGGu----GCUCAGCU----------UCCCCau-----CCGU- -5'
31139 3' -56.8 NC_006560.1 + 6535 0.66 0.894063
Target:  5'- aUCGCCuCGgGGGcUCGggGGGacggGGGCu -3'
miRNA:   3'- -AGUGG-GUgCUC-AGCuuCCCca--UCCGu -5'
31139 3' -56.8 NC_006560.1 + 104769 0.66 0.894063
Target:  5'- cCGCCCcggGCGGGggcgCGggGGGGagcGGUc -3'
miRNA:   3'- aGUGGG---UGCUCa---GCuuCCCCau-CCGu -5'
31139 3' -56.8 NC_006560.1 + 141690 0.66 0.890077
Target:  5'- aCACCC-CGGGccccccacccccucCGggGGGG-GGGCGa -3'
miRNA:   3'- aGUGGGuGCUCa-------------GCuuCCCCaUCCGU- -5'
31139 3' -56.8 NC_006560.1 + 10196 0.66 0.890077
Target:  5'- cCACCUcgGCGAugggGUgGGgguggggguagggguAGGGGUGGGCGg -3'
miRNA:   3'- aGUGGG--UGCU----CAgCU---------------UCCCCAUCCGU- -5'
31139 3' -56.8 NC_006560.1 + 42546 0.66 0.887375
Target:  5'- gCGCCC-CgGGGUCGcgcGGGG-AGGCGc -3'
miRNA:   3'- aGUGGGuG-CUCAGCuu-CCCCaUCCGU- -5'
31139 3' -56.8 NC_006560.1 + 37609 0.66 0.887375
Target:  5'- aCACUCcCGGGa-GAAGGGGUcgcGGCAg -3'
miRNA:   3'- aGUGGGuGCUCagCUUCCCCAu--CCGU- -5'
31139 3' -56.8 NC_006560.1 + 138576 0.66 0.887375
Target:  5'- cUCcCCgGCGAGcgCGGAgacGGGGgcGGCGg -3'
miRNA:   3'- -AGuGGgUGCUCa-GCUU---CCCCauCCGU- -5'
31139 3' -56.8 NC_006560.1 + 92965 0.66 0.880465
Target:  5'- gUCACCCagACGGGcggcgCGGAcgucGGGG-AGGCGu -3'
miRNA:   3'- -AGUGGG--UGCUCa----GCUU----CCCCaUCCGU- -5'
31139 3' -56.8 NC_006560.1 + 100824 0.66 0.880465
Target:  5'- gCGCgggCGCGGGggccggCGGAGGGGagGGGCGg -3'
miRNA:   3'- aGUGg--GUGCUCa-----GCUUCCCCa-UCCGU- -5'
31139 3' -56.8 NC_006560.1 + 17469 0.66 0.880465
Target:  5'- gCACCUcCGGGgugaguccgcCGggGGGGgugGGGCu -3'
miRNA:   3'- aGUGGGuGCUCa---------GCuuCCCCa--UCCGu -5'
31139 3' -56.8 NC_006560.1 + 54871 0.66 0.880465
Target:  5'- gCGCCCGgGAGccgCGAgacgcccccGGGGGccaggGGGCGg -3'
miRNA:   3'- aGUGGGUgCUCa--GCU---------UCCCCa----UCCGU- -5'
31139 3' -56.8 NC_006560.1 + 9043 0.66 0.880465
Target:  5'- gUCACCagguaCACGGgggcGUCGAccgccuccAGGGGgagGGGCGg -3'
miRNA:   3'- -AGUGG-----GUGCU----CAGCU--------UCCCCa--UCCGU- -5'
31139 3' -56.8 NC_006560.1 + 3993 0.66 0.880465
Target:  5'- aCGCCCGCGgcgccguagccGG-CGAGgccGGGGgcGGCGg -3'
miRNA:   3'- aGUGGGUGC-----------UCaGCUU---CCCCauCCGU- -5'
31139 3' -56.8 NC_006560.1 + 55755 0.66 0.880465
Target:  5'- gUCGCgCCGCGcGUCGAcGcGGGUGcGCAc -3'
miRNA:   3'- -AGUG-GGUGCuCAGCUuC-CCCAUcCGU- -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.