miRNA display CGI


Results 1 - 20 of 35 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
17210 3' -61.4 NC_004333.2 + 5044 0.66 0.351003
Target:  5'- aGGCGgCCGGcUGUUggccgacgucggCGCGGCGCUGa- -3'
miRNA:   3'- gUCGUgGGCC-ACGA------------GCGCCGUGACgu -5'
17210 3' -61.4 NC_004333.2 + 25943 0.66 0.342836
Target:  5'- gCGGCGCgaugCCGGcgGCcaguaCGCGGCGCUGgAa -3'
miRNA:   3'- -GUCGUG----GGCCa-CGa----GCGCCGUGACgU- -5'
17210 3' -61.4 NC_004333.2 + 25697 0.66 0.342836
Target:  5'- uCAGCcugaacGCCCGcGagaauggcuUGCUCGcCGGCcaGCUGCAg -3'
miRNA:   3'- -GUCG------UGGGC-C---------ACGAGC-GCCG--UGACGU- -5'
17210 3' -61.4 NC_004333.2 + 39174 0.66 0.342836
Target:  5'- -uGcCGCCC-GUGCU-GCGcGCGCUGCAc -3'
miRNA:   3'- guC-GUGGGcCACGAgCGC-CGUGACGU- -5'
17210 3' -61.4 NC_004333.2 + 44412 0.66 0.342836
Target:  5'- aCGGcCugCCGG-GCUCGCuGGCuGgUGCGu -3'
miRNA:   3'- -GUC-GugGGCCaCGAGCG-CCG-UgACGU- -5'
17210 3' -61.4 NC_004333.2 + 13631 0.66 0.334807
Target:  5'- gAGCACUUcGUGCaucgCGCGGUACUcggGCAg -3'
miRNA:   3'- gUCGUGGGcCACGa---GCGCCGUGA---CGU- -5'
17210 3' -61.4 NC_004333.2 + 6658 0.66 0.334807
Target:  5'- -cGCGCUCGGcgcGCUCGagcaGGCGC-GCAu -3'
miRNA:   3'- guCGUGGGCCa--CGAGCg---CCGUGaCGU- -5'
17210 3' -61.4 NC_004333.2 + 12286 0.66 0.326916
Target:  5'- aCGGCACCggCGGcGCgcaUUGCGGCGucCUGCGc -3'
miRNA:   3'- -GUCGUGG--GCCaCG---AGCGCCGU--GACGU- -5'
17210 3' -61.4 NC_004333.2 + 3654 0.66 0.322248
Target:  5'- cCAGUACCCGGUGUgcagcucguUCGCGacggucugagccgucGCgucguaGCUGCGg -3'
miRNA:   3'- -GUCGUGGGCCACG---------AGCGC---------------CG------UGACGU- -5'
17210 3' -61.4 NC_004333.2 + 9650 0.67 0.31155
Target:  5'- -uGCGCCCGGcUGUUCGUuuucgggaaacGGCAUaGCGu -3'
miRNA:   3'- guCGUGGGCC-ACGAGCG-----------CCGUGaCGU- -5'
17210 3' -61.4 NC_004333.2 + 38686 0.67 0.31155
Target:  5'- gGGCACCaCGG-GCa-GCGGCGCgcccgGCu -3'
miRNA:   3'- gUCGUGG-GCCaCGagCGCCGUGa----CGu -5'
17210 3' -61.4 NC_004333.2 + 22804 0.67 0.304076
Target:  5'- -cGUACCaGGUGUUCGUcGCGCUGUc -3'
miRNA:   3'- guCGUGGgCCACGAGCGcCGUGACGu -5'
17210 3' -61.4 NC_004333.2 + 13513 0.67 0.304076
Target:  5'- uCAGCugguCgCCGuccgacGUGCUCGCGGCGUUGCc -3'
miRNA:   3'- -GUCGu---G-GGC------CACGAGCGCCGUGACGu -5'
17210 3' -61.4 NC_004333.2 + 12954 0.67 0.304076
Target:  5'- -cGCuAUCCGG-GCUCGaC-GCACUGCAg -3'
miRNA:   3'- guCG-UGGGCCaCGAGC-GcCGUGACGU- -5'
17210 3' -61.4 NC_004333.2 + 25875 0.67 0.282482
Target:  5'- gCAGCGCuuGGUGCgcgagCGCcaaGCGCcGCGc -3'
miRNA:   3'- -GUCGUGggCCACGa----GCGc--CGUGaCGU- -5'
17210 3' -61.4 NC_004333.2 + 18541 0.67 0.275558
Target:  5'- gCGGCaACCCgGGUGCggcaGcCGGCGCgGCGg -3'
miRNA:   3'- -GUCG-UGGG-CCACGag--C-GCCGUGaCGU- -5'
17210 3' -61.4 NC_004333.2 + 23593 0.68 0.262121
Target:  5'- gCGGCuACCCGaaaggCGCGGUGCUGCAa -3'
miRNA:   3'- -GUCG-UGGGCcacgaGCGCCGUGACGU- -5'
17210 3' -61.4 NC_004333.2 + 48165 0.68 0.262121
Target:  5'- -cGCGCCCGGUugccgccugcGcCUCGuCGGCACcgaGCAg -3'
miRNA:   3'- guCGUGGGCCA----------C-GAGC-GCCGUGa--CGU- -5'
17210 3' -61.4 NC_004333.2 + 30996 0.68 0.262121
Target:  5'- -uGUugCgGGcUGCUCGCGcgguagguGCGCUGCAg -3'
miRNA:   3'- guCGugGgCC-ACGAGCGC--------CGUGACGU- -5'
17210 3' -61.4 NC_004333.2 + 45030 0.68 0.262121
Target:  5'- -cGCGCgUGGcGCUgGCGGCGC-GCAa -3'
miRNA:   3'- guCGUGgGCCaCGAgCGCCGUGaCGU- -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.