miRNA display CGI


Results 1 - 20 of 100 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
19149 5' -53.9 NC_004684.1 + 1517 0.68 0.691876
Target:  5'- -cGCcGCGCucaaCGGCGACGAcgcgacccugcGCUCGCa -3'
miRNA:   3'- caCGaCGCGuc--GCCGUUGUU-----------UGAGUG- -5'
19149 5' -53.9 NC_004684.1 + 1969 0.7 0.569193
Target:  5'- cUGCUGUcCGGCGGUAugGAcaGCUCGa -3'
miRNA:   3'- cACGACGcGUCGCCGUugUU--UGAGUg -5'
19149 5' -53.9 NC_004684.1 + 3572 0.66 0.807143
Target:  5'- cGUGgUGCGCcacAGCGGgGACGuggaguACgUCGCg -3'
miRNA:   3'- -CACgACGCG---UCGCCgUUGUu-----UG-AGUG- -5'
19149 5' -53.9 NC_004684.1 + 4234 0.67 0.7247
Target:  5'- -cGcCUGCGCGGCGcGCAGgAGccgcACUCGg -3'
miRNA:   3'- caC-GACGCGUCGC-CGUUgUU----UGAGUg -5'
19149 5' -53.9 NC_004684.1 + 5396 0.73 0.367409
Target:  5'- -cGCgauugUGCGCGGCGGguGCGgguGGCUCAUg -3'
miRNA:   3'- caCG-----ACGCGUCGCCguUGU---UUGAGUG- -5'
19149 5' -53.9 NC_004684.1 + 6653 0.68 0.658514
Target:  5'- cGUGCaGCGCGGUGuCGACAuGC-CACg -3'
miRNA:   3'- -CACGaCGCGUCGCcGUUGUuUGaGUG- -5'
19149 5' -53.9 NC_004684.1 + 7408 0.66 0.760844
Target:  5'- cUGCgGCGCGuGCGGCAagguccgggugcggcACGAGCgccgccagCACa -3'
miRNA:   3'- cACGaCGCGU-CGCCGU---------------UGUUUGa-------GUG- -5'
19149 5' -53.9 NC_004684.1 + 9021 0.7 0.536319
Target:  5'- gGUGCcgUGCGgGGCGGCAACcGGCgcggCAa -3'
miRNA:   3'- -CACG--ACGCgUCGCCGUUGuUUGa---GUg -5'
19149 5' -53.9 NC_004684.1 + 9037 0.66 0.797382
Target:  5'- aUGCguacGUGguGUGGCAcgacgccaGCcAGCUCACg -3'
miRNA:   3'- cACGa---CGCguCGCCGU--------UGuUUGAGUG- -5'
19149 5' -53.9 NC_004684.1 + 9218 0.67 0.702893
Target:  5'- gGUGCUG-GUGGCGGC-ACAG--UCGCa -3'
miRNA:   3'- -CACGACgCGUCGCCGuUGUUugAGUG- -5'
19149 5' -53.9 NC_004684.1 + 12088 0.67 0.746125
Target:  5'- gGUGCUGgccCGC-GCGGCGGCca--UCACg -3'
miRNA:   3'- -CACGAC---GCGuCGCCGUUGuuugAGUG- -5'
19149 5' -53.9 NC_004684.1 + 12286 0.73 0.385345
Target:  5'- cGUGCUGCGCAGCGcGcCAACGGuggaggUACg -3'
miRNA:   3'- -CACGACGCGUCGC-C-GUUGUUuga---GUG- -5'
19149 5' -53.9 NC_004684.1 + 12773 0.69 0.624922
Target:  5'- -gGCUGCGCcuGCGGcCAACGAGgaCAa -3'
miRNA:   3'- caCGACGCGu-CGCC-GUUGUUUgaGUg -5'
19149 5' -53.9 NC_004684.1 + 12967 0.67 0.735466
Target:  5'- ----cGCGC-GCGGCGugAGGCUCGa -3'
miRNA:   3'- cacgaCGCGuCGCCGUugUUUGAGUg -5'
19149 5' -53.9 NC_004684.1 + 13548 0.66 0.767071
Target:  5'- -aGCUGCGCcuGGCGGCcAUcgGCUacuGCg -3'
miRNA:   3'- caCGACGCG--UCGCCGuUGuuUGAg--UG- -5'
19149 5' -53.9 NC_004684.1 + 15191 1.08 0.001447
Target:  5'- gGUGCUGCGCAGCGGCAACAAACUCACc -3'
miRNA:   3'- -CACGACGCGUCGCCGUUGUUUGAGUG- -5'
19149 5' -53.9 NC_004684.1 + 15303 0.66 0.797382
Target:  5'- -gGCUGgcgcgaCGCGGUGGCAACccGCgaagCACu -3'
miRNA:   3'- caCGAC------GCGUCGCCGUUGuuUGa---GUG- -5'
19149 5' -53.9 NC_004684.1 + 15762 0.79 0.163164
Target:  5'- -aGCUGCGCAGCGGCAcCua--UCGCg -3'
miRNA:   3'- caCGACGCGUCGCCGUuGuuugAGUG- -5'
19149 5' -53.9 NC_004684.1 + 15827 0.67 0.710563
Target:  5'- -cGCcGCGCAGCGcgcacuggcgcagaGCGACAAgguGCUCGg -3'
miRNA:   3'- caCGaCGCGUCGC--------------CGUUGUU---UGAGUg -5'
19149 5' -53.9 NC_004684.1 + 16255 0.68 0.669675
Target:  5'- -gGCgGCGCAGauucguCGGCAGau-GCUCGCg -3'
miRNA:   3'- caCGaCGCGUC------GCCGUUguuUGAGUG- -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.