miRNA display CGI


Results 1 - 20 of 36 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
1697 5' -57.4 NC_001347.2 + 1749 0.67 0.873082
Target:  5'- aCGACGGUGGCGCUgcAGACGCcgggcaggcgaCUgCAg -3'
miRNA:   3'- -GUUGUCGCCGCGA--UCUGCGag---------GAgGU- -5'
1697 5' -57.4 NC_001347.2 + 1906 0.66 0.89469
Target:  5'- gCGGCuGGCuGGCGCUGGGCGCggugCUgCCc -3'
miRNA:   3'- -GUUG-UCG-CCGCGAUCUGCGa---GGaGGu -5'
1697 5' -57.4 NC_001347.2 + 1975 0.69 0.776905
Target:  5'- gGACGGCGGCGg-GGACGacgUCCcgCCAg -3'
miRNA:   3'- gUUGUCGCCGCgaUCUGCg--AGGa-GGU- -5'
1697 5' -57.4 NC_001347.2 + 2450 0.66 0.918573
Target:  5'- gAGCGGCcGCGCUgGGACGCgcugcaCCUgCAc -3'
miRNA:   3'- gUUGUCGcCGCGA-UCUGCGa-----GGAgGU- -5'
1697 5' -57.4 NC_001347.2 + 22204 0.68 0.803475
Target:  5'- -cGCAGCcacGCGCUGGugGCcgaacagcagcUCUUCCAa -3'
miRNA:   3'- guUGUCGc--CGCGAUCugCG-----------AGGAGGU- -5'
1697 5' -57.4 NC_001347.2 + 24628 0.68 0.836816
Target:  5'- cCGACAGCuGGUGCUAuuacuCGCcggCCUCCu -3'
miRNA:   3'- -GUUGUCG-CCGCGAUcu---GCGa--GGAGGu -5'
1697 5' -57.4 NC_001347.2 + 47344 0.69 0.785895
Target:  5'- aAACAGCGGacagucccaCGCUGuuucuguuGugGCUCuCUCCAg -3'
miRNA:   3'- gUUGUCGCC---------GCGAU--------CugCGAG-GAGGU- -5'
1697 5' -57.4 NC_001347.2 + 59077 0.7 0.720687
Target:  5'- -cGCGGCGGUuuUGGugGCgcggCCUCCu -3'
miRNA:   3'- guUGUCGCCGcgAUCugCGa---GGAGGu -5'
1697 5' -57.4 NC_001347.2 + 63834 0.71 0.651951
Target:  5'- gCGAUGGCGGgGCUGGuuGCUUUUCCc -3'
miRNA:   3'- -GUUGUCGCCgCGAUCugCGAGGAGGu -5'
1697 5' -57.4 NC_001347.2 + 65724 0.66 0.918573
Target:  5'- uGGCGGCGGUGgaGGGCGCgcggcaaCUCgAg -3'
miRNA:   3'- gUUGUCGCCGCgaUCUGCGag-----GAGgU- -5'
1697 5' -57.4 NC_001347.2 + 66517 0.66 0.907076
Target:  5'- aGGCGGCGGCGau---CGCagCCUCCu -3'
miRNA:   3'- gUUGUCGCCGCgaucuGCGa-GGAGGu -5'
1697 5' -57.4 NC_001347.2 + 68217 0.66 0.900993
Target:  5'- aGACGGCGgaaGCGgUAGACGCggcgCCgcaaCCAc -3'
miRNA:   3'- gUUGUCGC---CGCgAUCUGCGa---GGa---GGU- -5'
1697 5' -57.4 NC_001347.2 + 75426 0.66 0.923984
Target:  5'- gCGGCAGCGGCGC-AGA-GCgaaCUCa- -3'
miRNA:   3'- -GUUGUCGCCGCGaUCUgCGag-GAGgu -5'
1697 5' -57.4 NC_001347.2 + 75854 0.66 0.900993
Target:  5'- aCGACGuCGGcCGCgGGGCGCagcgCCUCCu -3'
miRNA:   3'- -GUUGUcGCC-GCGaUCUGCGa---GGAGGu -5'
1697 5' -57.4 NC_001347.2 + 80813 0.66 0.907076
Target:  5'- cCGGCAGCGGCauCUAGAcCGCcgcCCUCg- -3'
miRNA:   3'- -GUUGUCGCCGc-GAUCU-GCGa--GGAGgu -5'
1697 5' -57.4 NC_001347.2 + 82453 0.69 0.794755
Target:  5'- cCAACA-CGGCGCU--ACGCUgCUCUAg -3'
miRNA:   3'- -GUUGUcGCCGCGAucUGCGAgGAGGU- -5'
1697 5' -57.4 NC_001347.2 + 87628 0.66 0.912936
Target:  5'- gCGACGGCGGCuGCUGu-UGCUCg-CCAg -3'
miRNA:   3'- -GUUGUCGCCG-CGAUcuGCGAGgaGGU- -5'
1697 5' -57.4 NC_001347.2 + 88182 0.67 0.860001
Target:  5'- cCAACGGCGGaCGCaacGGGCGUuugCgUCCAc -3'
miRNA:   3'- -GUUGUCGCC-GCGa--UCUGCGa--GgAGGU- -5'
1697 5' -57.4 NC_001347.2 + 97014 0.68 0.803475
Target:  5'- -cGCGGCGGCGgaGGAUcCaaggCCUCCAg -3'
miRNA:   3'- guUGUCGCCGCgaUCUGcGa---GGAGGU- -5'
1697 5' -57.4 NC_001347.2 + 97411 1.08 0.003694
Target:  5'- gCAACAGCGGCGCUAGACGCUCCUCCAu -3'
miRNA:   3'- -GUUGUCGCCGCGAUCUGCGAGGAGGU- -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.