miRNA display CGI


Results 1 - 20 of 56 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
7806 3' -53.9 NC_001973.1 + 28229 1.12 0.003537
Target:  5'- aGCGGCGACACACCUCGUACAGUUGCGa -3'
miRNA:   3'- -CGCCGCUGUGUGGAGCAUGUCAACGC- -5'
7806 3' -53.9 NC_001973.1 + 121741 0.77 0.478618
Target:  5'- uGCGGCGGCACgACCUC--ACGGUgaucuUGCGg -3'
miRNA:   3'- -CGCCGCUGUG-UGGAGcaUGUCA-----ACGC- -5'
7806 3' -53.9 NC_001973.1 + 67720 0.74 0.66918
Target:  5'- uCGGCGacGCACACCUUGcugaUGCGGUUGUc -3'
miRNA:   3'- cGCCGC--UGUGUGGAGC----AUGUCAACGc -5'
7806 3' -53.9 NC_001973.1 + 76991 0.73 0.718638
Target:  5'- aGCGGCGcCACgcugaucACCUCGUcggGCGGcgGCGg -3'
miRNA:   3'- -CGCCGCuGUG-------UGGAGCA---UGUCaaCGC- -5'
7806 3' -53.9 NC_001973.1 + 88876 0.72 0.729534
Target:  5'- cGCGaGCGGCGCcuCgUCGUGCAGUccgUGCu -3'
miRNA:   3'- -CGC-CGCUGUGu-GgAGCAUGUCA---ACGc -5'
7806 3' -53.9 NC_001973.1 + 109371 0.72 0.749073
Target:  5'- aGCGGuCGACgaGCGCCUCGU--AGgcGCGg -3'
miRNA:   3'- -CGCC-GCUG--UGUGGAGCAugUCaaCGC- -5'
7806 3' -53.9 NC_001973.1 + 7101 0.72 0.7682
Target:  5'- cGCGcGCGAC-CGCCgUCGUGCucgagUGCGg -3'
miRNA:   3'- -CGC-CGCUGuGUGG-AGCAUGuca--ACGC- -5'
7806 3' -53.9 NC_001973.1 + 124310 0.71 0.777586
Target:  5'- uCGGCGGCACGCgCUCGaGCgAGcUGCa -3'
miRNA:   3'- cGCCGCUGUGUG-GAGCaUG-UCaACGc -5'
7806 3' -53.9 NC_001973.1 + 89590 0.71 0.822374
Target:  5'- aGCGGCGugGuCGCCaCGUACAcGUggccgggcacgUGCGg -3'
miRNA:   3'- -CGCCGCugU-GUGGaGCAUGU-CA-----------ACGC- -5'
7806 3' -53.9 NC_001973.1 + 55431 0.71 0.822374
Target:  5'- gGCGGCGGCGgGCC-CG-ACGGcgcgGCGg -3'
miRNA:   3'- -CGCCGCUGUgUGGaGCaUGUCaa--CGC- -5'
7806 3' -53.9 NC_001973.1 + 121235 0.7 0.830844
Target:  5'- cGCGGCGGCGCGgCgCGUcgcagaACAGggugGCGa -3'
miRNA:   3'- -CGCCGCUGUGUgGaGCA------UGUCaa--CGC- -5'
7806 3' -53.9 NC_001973.1 + 146790 0.7 0.836666
Target:  5'- gGUGGCGAgCACGCCUuccaccccgccgggCGUGCGGguguuagUGCu -3'
miRNA:   3'- -CGCCGCU-GUGUGGA--------------GCAUGUCa------ACGc -5'
7806 3' -53.9 NC_001973.1 + 124203 0.7 0.839133
Target:  5'- cGCGGCGGCGCGCCggcUCGUgaccgacuACGGccagGCc -3'
miRNA:   3'- -CGCCGCUGUGUGG---AGCA--------UGUCaa--CGc -5'
7806 3' -53.9 NC_001973.1 + 103958 0.7 0.839133
Target:  5'- cGCGGCGccaGCAgccuaGCCggggCGUGCcGUUGCGa -3'
miRNA:   3'- -CGCCGC---UGUg----UGGa---GCAUGuCAACGC- -5'
7806 3' -53.9 NC_001973.1 + 83934 0.7 0.847232
Target:  5'- aGCGGacaCGGCGCGCCgcUCGgagGCGGgcGCGu -3'
miRNA:   3'- -CGCC---GCUGUGUGG--AGCa--UGUCaaCGC- -5'
7806 3' -53.9 NC_001973.1 + 132546 0.7 0.855136
Target:  5'- cGCGGCGGCGgGCUcgagCGcgGCGGUgugGCGc -3'
miRNA:   3'- -CGCCGCUGUgUGGa---GCa-UGUCAa--CGC- -5'
7806 3' -53.9 NC_001973.1 + 16773 0.7 0.862837
Target:  5'- uGCGGCGAagcacgcgaaaCACGuCCUCGUACGuggcuUUGCa -3'
miRNA:   3'- -CGCCGCU-----------GUGU-GGAGCAUGUc----AACGc -5'
7806 3' -53.9 NC_001973.1 + 49686 0.7 0.862837
Target:  5'- cGCGGCGAUGgACCUgucgagccgcgcCGUGCAGUauccgGCc -3'
miRNA:   3'- -CGCCGCUGUgUGGA------------GCAUGUCAa----CGc -5'
7806 3' -53.9 NC_001973.1 + 88567 0.69 0.882569
Target:  5'- cGCGcGCccuccgcacgcacuGGCGCGCCUCGU-CGGUgGCGu -3'
miRNA:   3'- -CGC-CG--------------CUGUGUGGAGCAuGUCAaCGC- -5'
7806 3' -53.9 NC_001973.1 + 94676 0.69 0.884662
Target:  5'- -gGGCGACACgGCCUaCGUGCucuucgGCGa -3'
miRNA:   3'- cgCCGCUGUG-UGGA-GCAUGucaa--CGC- -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.