miRNA display CGI


Results 1 - 20 of 47 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
11917 3' -55.5 NC_003278.1 + 32970 0.73 0.21968
Target:  5'- gCCGGCG-CGGUGUcgGCCAGuGCGcGGCa -3'
miRNA:   3'- -GGCCGUaGCUACG--CGGUCuCGUaCUG- -5'
11917 3' -55.5 NC_003278.1 + 29384 0.66 0.585794
Target:  5'- -gGGCGacguggCGGUGCGCgGcGGCGUGAUc -3'
miRNA:   3'- ggCCGUa-----GCUACGCGgUcUCGUACUG- -5'
11917 3' -55.5 NC_003278.1 + 13413 0.66 0.552153
Target:  5'- aUCaGCGUCGA--CGCCuGGGCAUGGa -3'
miRNA:   3'- -GGcCGUAGCUacGCGGuCUCGUACUg -5'
11917 3' -55.5 NC_003278.1 + 22514 0.67 0.507197
Target:  5'- gCGGCcUCGAg--GCCGaucaguuGAGCGUGACa -3'
miRNA:   3'- gGCCGuAGCUacgCGGU-------CUCGUACUG- -5'
11917 3' -55.5 NC_003278.1 + 3210 0.67 0.505042
Target:  5'- cUCGGCAUCGAggauggugacgaucUgGCGCCAGAuGCGg--- -3'
miRNA:   3'- -GGCCGUAGCU--------------A-CGCGGUCU-CGUacug -5'
11917 3' -55.5 NC_003278.1 + 19758 0.67 0.497532
Target:  5'- aCCGGCAUggCGGcacGCGCgAcGGGCAUGuACa -3'
miRNA:   3'- -GGCCGUA--GCUa--CGCGgU-CUCGUAC-UG- -5'
11917 3' -55.5 NC_003278.1 + 15129 0.67 0.476359
Target:  5'- uCCGGCAUCuuaccUGCuGCCAGAGgCGguaccGGCa -3'
miRNA:   3'- -GGCCGUAGcu---ACG-CGGUCUC-GUa----CUG- -5'
11917 3' -55.5 NC_003278.1 + 17244 0.68 0.445468
Target:  5'- gCGGuCAUCGGcgGCGUCAGcGCcgAUGGCa -3'
miRNA:   3'- gGCC-GUAGCUa-CGCGGUCuCG--UACUG- -5'
11917 3' -55.5 NC_003278.1 + 29155 0.68 0.435421
Target:  5'- uCC-GCAUCGAU-CGCCccgacgacgAGAGCGUGAa -3'
miRNA:   3'- -GGcCGUAGCUAcGCGG---------UCUCGUACUg -5'
11917 3' -55.5 NC_003278.1 + 20303 0.69 0.396591
Target:  5'- nCCGGCAccUCGAUGCGCUcu-GUucUGACc -3'
miRNA:   3'- -GGCCGU--AGCUACGCGGucuCGu-ACUG- -5'
11917 3' -55.5 NC_003278.1 + 20213 0.72 0.250714
Target:  5'- gCCGGCGUCGGccGCgaguacgGCCAGAGCcUGGa -3'
miRNA:   3'- -GGCCGUAGCUa-CG-------CGGUCUCGuACUg -5'
11917 3' -55.5 NC_003278.1 + 22064 0.72 0.265085
Target:  5'- cCCGGCGU-GcUGCuGCCGGAGC-UGGCc -3'
miRNA:   3'- -GGCCGUAgCuACG-CGGUCUCGuACUG- -5'
11917 3' -55.5 NC_003278.1 + 12633 0.71 0.301975
Target:  5'- cCUGaGCAUCccccugcaGAUggGCGCCAGcGCAUGACa -3'
miRNA:   3'- -GGC-CGUAG--------CUA--CGCGGUCuCGUACUG- -5'
11917 3' -55.5 NC_003278.1 + 20273 0.69 0.368972
Target:  5'- cUCGGCAaCGcugGCGuCCAGGGCAgcaUGGCc -3'
miRNA:   3'- -GGCCGUaGCua-CGC-GGUCUCGU---ACUG- -5'
11917 3' -55.5 NC_003278.1 + 27517 0.69 0.387238
Target:  5'- -gGGCAUCGAcugGgGCCAGGGa--GACg -3'
miRNA:   3'- ggCCGUAGCUa--CgCGGUCUCguaCUG- -5'
11917 3' -55.5 NC_003278.1 + 9606 0.69 0.387238
Target:  5'- gCGGCAgcaGcUGCGCCAG-GCGcUGGCc -3'
miRNA:   3'- gGCCGUag-CuACGCGGUCuCGU-ACUG- -5'
11917 3' -55.5 NC_003278.1 + 32361 0.69 0.387238
Target:  5'- cCUGGCAcUGGUGCgaGCCGGcAGCGacUGGCg -3'
miRNA:   3'- -GGCCGUaGCUACG--CGGUC-UCGU--ACUG- -5'
11917 3' -55.5 NC_003278.1 + 28995 1.12 0.000312
Target:  5'- gCCGGCAUCGAUGCGCCAGAGCAUGACg -3'
miRNA:   3'- -GGCCGUAGCUACGCGGUCUCGUACUG- -5'
11917 3' -55.5 NC_003278.1 + 27033 0.66 0.574527
Target:  5'- gUGGCGaCGAUggcGUGCCAGAuGC-UGACc -3'
miRNA:   3'- gGCCGUaGCUA---CGCGGUCU-CGuACUG- -5'
11917 3' -55.5 NC_003278.1 + 25103 0.66 0.56331
Target:  5'- gCCgGGCGccugaUCuGcgGCGUCucGAGCAUGACg -3'
miRNA:   3'- -GG-CCGU-----AG-CuaCGCGGu-CUCGUACUG- -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.