miRNA display CGI


Results 1 - 20 of 37 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
23139 3' -63.2 NC_005178.1 + 16603 0.66 0.236291
Target:  5'- aAGaCCUGGaCgUUGGCC-GCUaCCGGCAc -3'
miRNA:   3'- gUC-GGACC-GgGACUGGuCGA-GGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 8755 0.66 0.230255
Target:  5'- -uGCCgugGGCgaCUUGGCCAGCgugCgGGCGg -3'
miRNA:   3'- guCGGa--CCG--GGACUGGUCGa--GgCCGU- -5'
23139 3' -63.2 NC_005178.1 + 20386 0.66 0.22435
Target:  5'- aGGCgUGacGCCUUGGCCAccgucagcGCUCgGGCAu -3'
miRNA:   3'- gUCGgAC--CGGGACUGGU--------CGAGgCCGU- -5'
23139 3' -63.2 NC_005178.1 + 13229 0.66 0.207403
Target:  5'- aCGGCUgGGUCggGGCCGGCgUCGGCAg -3'
miRNA:   3'- -GUCGGaCCGGgaCUGGUCGaGGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 34978 0.66 0.207403
Target:  5'- gCAGcCCUGgaaGCCC-GGCCAGCUUuguaGGCAu -3'
miRNA:   3'- -GUC-GGAC---CGGGaCUGGUCGAGg---CCGU- -5'
23139 3' -63.2 NC_005178.1 + 16847 0.66 0.207403
Target:  5'- uGGCCUGGCCCaGguagcucuucaaGCCGGCcaagUCCuuGGCGc -3'
miRNA:   3'- gUCGGACCGGGaC------------UGGUCG----AGG--CCGU- -5'
23139 3' -63.2 NC_005178.1 + 11051 0.66 0.207403
Target:  5'- -uGCgaGGCUUUGACCGGUUCguCGGCc -3'
miRNA:   3'- guCGgaCCGGGACUGGUCGAG--GCCGu -5'
23139 3' -63.2 NC_005178.1 + 14282 0.66 0.207403
Target:  5'- -uGCCaaGGUCCaGGucuUCGGCUCCGGCAa -3'
miRNA:   3'- guCGGa-CCGGGaCU---GGUCGAGGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 35561 0.66 0.205771
Target:  5'- uGGCCaGGCC--GACCAGCUgaucgauaccacggUCGGCAa -3'
miRNA:   3'- gUCGGaCCGGgaCUGGUCGA--------------GGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 22174 0.67 0.202005
Target:  5'- aCGGCuuCUGGCagCUGGCCuauGGCUccaCCGGCAc -3'
miRNA:   3'- -GUCG--GACCGg-GACUGG---UCGA---GGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 31177 0.67 0.191574
Target:  5'- cCGGaCCUGGUCCUGGUCAuCaCCGGCAa -3'
miRNA:   3'- -GUC-GGACCGGGACUGGUcGaGGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 2381 0.67 0.186538
Target:  5'- gCGGCCUGGCCgacagUGAcguccuCCAGCcggCUGGCGu -3'
miRNA:   3'- -GUCGGACCGGg----ACU------GGUCGa--GGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 12945 0.67 0.186538
Target:  5'- -cGCCaGGUgCUGGCCGGC-CUGGUg -3'
miRNA:   3'- guCGGaCCGgGACUGGUCGaGGCCGu -5'
23139 3' -63.2 NC_005178.1 + 7482 0.67 0.181619
Target:  5'- uGGCCUGGagcgaaCC-GAUCAGCUaccgcgacuucgCCGGCAg -3'
miRNA:   3'- gUCGGACCg-----GGaCUGGUCGA------------GGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 34537 0.67 0.181619
Target:  5'- uCGGCCUGGUCCagGAagcGCUCCaGGCu -3'
miRNA:   3'- -GUCGGACCGGGa-CUgguCGAGG-CCGu -5'
23139 3' -63.2 NC_005178.1 + 20733 0.68 0.163075
Target:  5'- uCGGCCUGGUuuugcauguCCUgGGCCGGCaggCUGGCc -3'
miRNA:   3'- -GUCGGACCG---------GGA-CUGGUCGa--GGCCGu -5'
23139 3' -63.2 NC_005178.1 + 3449 0.68 0.158713
Target:  5'- cCGGCCUGGCCgaG-UCGGCcCUGGUg -3'
miRNA:   3'- -GUCGGACCGGgaCuGGUCGaGGCCGu -5'
23139 3' -63.2 NC_005178.1 + 23477 0.68 0.157425
Target:  5'- aAGCC-GGCCCgcugcucGGCCGGCUgcucaaggcacugaCCGGCu -3'
miRNA:   3'- gUCGGaCCGGGa------CUGGUCGA--------------GGCCGu -5'
23139 3' -63.2 NC_005178.1 + 5638 0.68 0.154456
Target:  5'- cCAGCgaUGGCCgaUGACCGGCagcgccaucCCGGCGa -3'
miRNA:   3'- -GUCGg-ACCGGg-ACUGGUCGa--------GGCCGU- -5'
23139 3' -63.2 NC_005178.1 + 16786 0.68 0.150303
Target:  5'- aAGCgCUGGaCCaggugCUGGCCAGCcugCCGGCc -3'
miRNA:   3'- gUCG-GACC-GG-----GACUGGUCGa--GGCCGu -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.