miRNA display CGI


Results 1 - 20 of 38 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
15776 3' -53.3 NC_004065.1 + 69351 0.66 0.993736
Target:  5'- gGAGGgcaaccugcCCUCgGACGacaugaUGUCGAGGAUCAc -3'
miRNA:   3'- -CUCUa--------GGAG-CUGCa-----GCAGCUCCUAGU- -5'
15776 3' -53.3 NC_004065.1 + 197083 0.66 0.993736
Target:  5'- cAGuUCCUCGuaGCGgcUCG-CGGGGGUCAg -3'
miRNA:   3'- cUCuAGGAGC--UGC--AGCaGCUCCUAGU- -5'
15776 3' -53.3 NC_004065.1 + 138239 0.66 0.993736
Target:  5'- cGAGG-CgCUCGcCGcCGUCGAGGAgggUCGg -3'
miRNA:   3'- -CUCUaG-GAGCuGCaGCAGCUCCU---AGU- -5'
15776 3' -53.3 NC_004065.1 + 96651 0.66 0.993472
Target:  5'- cGAGcucuUUCUCGGCGUCGgCgggcucgcccgacgGAGGAUCGu -3'
miRNA:   3'- -CUCu---AGGAGCUGCAGCaG--------------CUCCUAGU- -5'
15776 3' -53.3 NC_004065.1 + 20826 0.66 0.992819
Target:  5'- ---cUUCUCGAgGgUCGUCGAGGAa-- -3'
miRNA:   3'- cucuAGGAGCUgC-AGCAGCUCCUagu -5'
15776 3' -53.3 NC_004065.1 + 96495 0.66 0.992819
Target:  5'- --aGUCCUCGACGucagauuccuccUCGUCgGAGGAc-- -3'
miRNA:   3'- cucUAGGAGCUGC------------AGCAG-CUCCUagu -5'
15776 3' -53.3 NC_004065.1 + 86377 0.66 0.992819
Target:  5'- cGAGGUCCaCG-CGUCGcccCGAGGAauccuUCAg -3'
miRNA:   3'- -CUCUAGGaGCuGCAGCa--GCUCCU-----AGU- -5'
15776 3' -53.3 NC_004065.1 + 150884 0.66 0.991798
Target:  5'- aGAGGUCCagCGACGagucCGUCG-GGAaCAa -3'
miRNA:   3'- -CUCUAGGa-GCUGCa---GCAGCuCCUaGU- -5'
15776 3' -53.3 NC_004065.1 + 142706 0.66 0.990666
Target:  5'- ---cUCCUgGACcggCGUCGGGGGUCc -3'
miRNA:   3'- cucuAGGAgCUGca-GCAGCUCCUAGu -5'
15776 3' -53.3 NC_004065.1 + 143522 0.66 0.988034
Target:  5'- uGAGcagcGUCCUCGACGUCuggGagGGGGAcaUCGg -3'
miRNA:   3'- -CUC----UAGGAGCUGCAG---CagCUCCU--AGU- -5'
15776 3' -53.3 NC_004065.1 + 125793 0.67 0.98652
Target:  5'- uGAGcgCCUCGGCGUgCGagaugcgcUgGGGGAUCc -3'
miRNA:   3'- -CUCuaGGAGCUGCA-GC--------AgCUCCUAGu -5'
15776 3' -53.3 NC_004065.1 + 4445 0.67 0.984862
Target:  5'- -cGggCCUCGAgcUCGUCGcGGGUCGg -3'
miRNA:   3'- cuCuaGGAGCUgcAGCAGCuCCUAGU- -5'
15776 3' -53.3 NC_004065.1 + 34995 0.67 0.984862
Target:  5'- ----aCCUCGACGUCGUCGcccGUCGu -3'
miRNA:   3'- cucuaGGAGCUGCAGCAGCuccUAGU- -5'
15776 3' -53.3 NC_004065.1 + 199333 0.67 0.983053
Target:  5'- ----aCCUCGACGUCG-CGAcGGAcCAg -3'
miRNA:   3'- cucuaGGAGCUGCAGCaGCU-CCUaGU- -5'
15776 3' -53.3 NC_004065.1 + 145854 0.67 0.983053
Target:  5'- cGAGAUCUUcucCGACGgCGUCGAG-AUCc -3'
miRNA:   3'- -CUCUAGGA---GCUGCaGCAGCUCcUAGu -5'
15776 3' -53.3 NC_004065.1 + 26876 0.67 0.983053
Target:  5'- -cGGUCCUCGG-GUCG-CGAGGG-CGg -3'
miRNA:   3'- cuCUAGGAGCUgCAGCaGCUCCUaGU- -5'
15776 3' -53.3 NC_004065.1 + 73958 0.67 0.981086
Target:  5'- cGAGAcaggCgUCGGCGagGUCGAGGucGUCGc -3'
miRNA:   3'- -CUCUa---GgAGCUGCagCAGCUCC--UAGU- -5'
15776 3' -53.3 NC_004065.1 + 35614 0.67 0.978953
Target:  5'- cGGGAUCCaCGGCGgcggCGgcggCGGGGAugUCAu -3'
miRNA:   3'- -CUCUAGGaGCUGCa---GCa---GCUCCU--AGU- -5'
15776 3' -53.3 NC_004065.1 + 223159 0.68 0.976647
Target:  5'- -cGG-CCUUGAagaGUCGUCG-GGAUCGa -3'
miRNA:   3'- cuCUaGGAGCUg--CAGCAGCuCCUAGU- -5'
15776 3' -53.3 NC_004065.1 + 169137 0.68 0.97416
Target:  5'- --cAUCCUCGACGUCGggcgggaauaCGAGGGc-- -3'
miRNA:   3'- cucUAGGAGCUGCAGCa---------GCUCCUagu -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.