miRNA display CGI


Results 1 - 20 of 32 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
18649 3' -57.2 NC_004682.1 + 34065 0.66 0.610786
Target:  5'- cGAGGcGUCcauGCCGCa---GGCACCGUacgaGCg -3'
miRNA:   3'- -CUUC-CAG---UGGCGguagCCGUGGCA----CG- -5'
18649 3' -57.2 NC_004682.1 + 4424 0.66 0.599891
Target:  5'- cGgcGGUCACCagcGCCuuggugagCGGCucaaCGUGCu -3'
miRNA:   3'- -CuuCCAGUGG---CGGua------GCCGug--GCACG- -5'
18649 3' -57.2 NC_004682.1 + 27100 0.66 0.589023
Target:  5'- cGAGGUCugGCCGCUcaaaCGGUgagACCGUGg -3'
miRNA:   3'- cUUCCAG--UGGCGGua--GCCG---UGGCACg -5'
18649 3' -57.2 NC_004682.1 + 16985 0.66 0.589023
Target:  5'- cGAGGcCACagCGCCGacacCGGCACCGaacGCg -3'
miRNA:   3'- cUUCCaGUG--GCGGUa---GCCGUGGCa--CG- -5'
18649 3' -57.2 NC_004682.1 + 37191 0.66 0.589023
Target:  5'- cGAGGUCAugaacuucuUCGCCGcgcCGaGgGCCGUGCu -3'
miRNA:   3'- cUUCCAGU---------GGCGGUa--GC-CgUGGCACG- -5'
18649 3' -57.2 NC_004682.1 + 4475 0.66 0.578191
Target:  5'- --cGGUCAgC-UUGUCGGCACCGcGCu -3'
miRNA:   3'- cuuCCAGUgGcGGUAGCCGUGGCaCG- -5'
18649 3' -57.2 NC_004682.1 + 7189 0.66 0.556667
Target:  5'- -cAGGUaccaGCCGCCGUCGaCAgugCGUGCc -3'
miRNA:   3'- cuUCCAg---UGGCGGUAGCcGUg--GCACG- -5'
18649 3' -57.2 NC_004682.1 + 2211 0.67 0.535379
Target:  5'- -uAGGUCccuGCuCGCCuUCGGgGCCG-GCu -3'
miRNA:   3'- cuUCCAG---UG-GCGGuAGCCgUGGCaCG- -5'
18649 3' -57.2 NC_004682.1 + 27403 0.67 0.529048
Target:  5'- -cGGGUgGCCacgggcggcacaaucGCCGUCGGCGCacugGCg -3'
miRNA:   3'- cuUCCAgUGG---------------CGGUAGCCGUGgca-CG- -5'
18649 3' -57.2 NC_004682.1 + 20259 0.67 0.524842
Target:  5'- --cGGUCGacCCGCaCGUUGGgaACCGUGUu -3'
miRNA:   3'- cuuCCAGU--GGCG-GUAGCCg-UGGCACG- -5'
18649 3' -57.2 NC_004682.1 + 49946 0.67 0.521696
Target:  5'- -cAGGUCACuCGCCAugaUCGGaggaaucaaccgcauUCGUGCg -3'
miRNA:   3'- cuUCCAGUG-GCGGU---AGCCgu-------------GGCACG- -5'
18649 3' -57.2 NC_004682.1 + 31088 0.67 0.514384
Target:  5'- -cAGGUCGCCGa----GGCGCUGaUGCg -3'
miRNA:   3'- cuUCCAGUGGCgguagCCGUGGC-ACG- -5'
18649 3' -57.2 NC_004682.1 + 41932 0.67 0.514384
Target:  5'- --cGGUCugUGCUGgcccCGGCACUG-GCa -3'
miRNA:   3'- cuuCCAGugGCGGUa---GCCGUGGCaCG- -5'
18649 3' -57.2 NC_004682.1 + 16838 0.67 0.514384
Target:  5'- uGgcGGcugCAcCCGCCAUCGGC-CUGgugGCu -3'
miRNA:   3'- -CuuCCa--GU-GGCGGUAGCCGuGGCa--CG- -5'
18649 3' -57.2 NC_004682.1 + 2064 0.67 0.504012
Target:  5'- cGggGGgccaACCGCCGUCGuaGCgGUacaGCa -3'
miRNA:   3'- -CuuCCag--UGGCGGUAGCcgUGgCA---CG- -5'
18649 3' -57.2 NC_004682.1 + 30570 0.68 0.493732
Target:  5'- --cGGUCGg-GCCAcgCGGC-CCGUGCg -3'
miRNA:   3'- cuuCCAGUggCGGUa-GCCGuGGCACG- -5'
18649 3' -57.2 NC_004682.1 + 14572 0.68 0.493732
Target:  5'- --cGGUuuugacCGCUGCCGUCGGCuaCGUGUa -3'
miRNA:   3'- cuuCCA------GUGGCGGUAGCCGugGCACG- -5'
18649 3' -57.2 NC_004682.1 + 27749 0.68 0.483549
Target:  5'- -cGGGaUCGCCGCgaucacCAUCGaaauCACCGUGCc -3'
miRNA:   3'- cuUCC-AGUGGCG------GUAGCc---GUGGCACG- -5'
18649 3' -57.2 NC_004682.1 + 35310 0.68 0.480514
Target:  5'- cGGGGcCGCUGCCGUUGGCucggauguugaucgACgUGUGCg -3'
miRNA:   3'- cUUCCaGUGGCGGUAGCCG--------------UG-GCACG- -5'
18649 3' -57.2 NC_004682.1 + 33975 0.68 0.473468
Target:  5'- uGAGGaCugCGCCAaCGGCGCU-UGCc -3'
miRNA:   3'- cUUCCaGugGCGGUaGCCGUGGcACG- -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.