miRNA display CGI


Results 1 - 20 of 41 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
12820 5' -55.2 NC_003387.1 + 25496 0.66 0.703221
Target:  5'- cGCGUGucagcUCGGCCG-GGUcGaCCGC-AGACu -3'
miRNA:   3'- -UGUAC-----AGCCGGCuCCA-C-GGCGaUUUG- -5'
12820 5' -55.2 NC_003387.1 + 50064 0.66 0.703221
Target:  5'- uACGUGUCGucguacagcacGCCGcgccGGUGCgGCUucGCa -3'
miRNA:   3'- -UGUACAGC-----------CGGCu---CCACGgCGAuuUG- -5'
12820 5' -55.2 NC_003387.1 + 14615 0.66 0.703221
Target:  5'- cACGUGUCguaaaGGUCGcAGGUGcCCGUcAGGCc -3'
miRNA:   3'- -UGUACAG-----CCGGC-UCCAC-GGCGaUUUG- -5'
12820 5' -55.2 NC_003387.1 + 29222 0.66 0.692265
Target:  5'- gGCGcgGUUGGCCGGGcaccagaaccGCCGCUcGAACg -3'
miRNA:   3'- -UGUa-CAGCCGGCUCca--------CGGCGA-UUUG- -5'
12820 5' -55.2 NC_003387.1 + 27141 0.66 0.692265
Target:  5'- cCGUGcCcGCCGGGGUcggcGCCGCcgggGAACg -3'
miRNA:   3'- uGUACaGcCGGCUCCA----CGGCGa---UUUG- -5'
12820 5' -55.2 NC_003387.1 + 48988 0.66 0.681249
Target:  5'- gGCAUG-CGGCCGucgaucgcguGGcugugGCCGCUGGc- -3'
miRNA:   3'- -UGUACaGCCGGCu---------CCa----CGGCGAUUug -5'
12820 5' -55.2 NC_003387.1 + 51221 0.66 0.681249
Target:  5'- uGCAcGUCGGCCGcGGccUGgUGCUcGACg -3'
miRNA:   3'- -UGUaCAGCCGGCuCC--ACgGCGAuUUG- -5'
12820 5' -55.2 NC_003387.1 + 44842 0.66 0.681249
Target:  5'- -aGUG-CGGCCGAccucaaggucGGUGCCGU--AGCc -3'
miRNA:   3'- ugUACaGCCGGCU----------CCACGGCGauUUG- -5'
12820 5' -55.2 NC_003387.1 + 50157 0.66 0.681249
Target:  5'- gACggGUCGGCguacacggCGAGGaucUGCCGCggcGACc -3'
miRNA:   3'- -UGuaCAGCCG--------GCUCC---ACGGCGau-UUG- -5'
12820 5' -55.2 NC_003387.1 + 7819 0.66 0.670185
Target:  5'- cGCcUGgCGGCCGAGGUcGCCcgGCgcgcAGGCg -3'
miRNA:   3'- -UGuACaGCCGGCUCCA-CGG--CGa---UUUG- -5'
12820 5' -55.2 NC_003387.1 + 46110 0.66 0.654636
Target:  5'- gACAUGUuccggcugcugcggUGGCUcgggcguGAGGUGCCGCg---- -3'
miRNA:   3'- -UGUACA--------------GCCGG-------CUCCACGGCGauuug -5'
12820 5' -55.2 NC_003387.1 + 8022 0.67 0.647959
Target:  5'- --cUGUCGGCCcgcuGGUGgCCGCgcGAGCc -3'
miRNA:   3'- uguACAGCCGGcu--CCAC-GGCGa-UUUG- -5'
12820 5' -55.2 NC_003387.1 + 37126 0.67 0.647959
Target:  5'- ---cGUCGGCCGGGccGUGaugguugggcacUCGCUGGGCg -3'
miRNA:   3'- uguaCAGCCGGCUC--CAC------------GGCGAUUUG- -5'
12820 5' -55.2 NC_003387.1 + 49226 0.67 0.647959
Target:  5'- uGCcgGUcgaggCGGCCGAGcG-GCUGCUcGACg -3'
miRNA:   3'- -UGuaCA-----GCCGGCUC-CaCGGCGAuUUG- -5'
12820 5' -55.2 NC_003387.1 + 45708 0.67 0.625672
Target:  5'- cGCGaaagCGGCCGAGcUGCUGCgcGACa -3'
miRNA:   3'- -UGUaca-GCCGGCUCcACGGCGauUUG- -5'
12820 5' -55.2 NC_003387.1 + 28267 0.67 0.618987
Target:  5'- uACA-GUCGGUCGAGGccgccaaggcucaacUGCaCGcCUGGGCa -3'
miRNA:   3'- -UGUaCAGCCGGCUCC---------------ACG-GC-GAUUUG- -5'
12820 5' -55.2 NC_003387.1 + 39413 0.67 0.614532
Target:  5'- cGCGaGUgGGUCGAGGUgaccgggcGCCGC-AAGCu -3'
miRNA:   3'- -UGUaCAgCCGGCUCCA--------CGGCGaUUUG- -5'
12820 5' -55.2 NC_003387.1 + 35216 0.67 0.614532
Target:  5'- cGCAUGcUGGCCGAGcacuacgGCCGCg--GCg -3'
miRNA:   3'- -UGUACaGCCGGCUCca-----CGGCGauuUG- -5'
12820 5' -55.2 NC_003387.1 + 52186 0.67 0.603409
Target:  5'- aGCAgGUCGagcaggacgcuGUCGAGcagGCCGCUGAGCa -3'
miRNA:   3'- -UGUaCAGC-----------CGGCUCca-CGGCGAUUUG- -5'
12820 5' -55.2 NC_003387.1 + 51363 0.67 0.603409
Target:  5'- ---cGaCGG-CGAGGUGCCGUgGAGCg -3'
miRNA:   3'- uguaCaGCCgGCUCCACGGCGaUUUG- -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.