miRNA display CGI


Results 1 - 20 of 22 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
22957 3' -57.2 NC_005137.2 + 42326 0.66 0.819511
Target:  5'- cGGACGCGACGCuggccaaCUCCAcgaucuGGUUCcacGGCg -3'
miRNA:   3'- uUCUGCGUUGCGc------GAGGU------CCGAG---UCG- -5'
22957 3' -57.2 NC_005137.2 + 130344 0.66 0.810685
Target:  5'- cAGGugGCGGCGgcaCGUUuacaCCAGGUUgCGGCg -3'
miRNA:   3'- -UUCugCGUUGC---GCGA----GGUCCGA-GUCG- -5'
22957 3' -57.2 NC_005137.2 + 57731 0.66 0.810685
Target:  5'- ---uUGCGGCGCGCU--GGGCUCGacGCg -3'
miRNA:   3'- uucuGCGUUGCGCGAggUCCGAGU--CG- -5'
22957 3' -57.2 NC_005137.2 + 13743 0.66 0.801691
Target:  5'- gAAGACGCcguGCaGCGCgUCAuGUUCAGCg -3'
miRNA:   3'- -UUCUGCGu--UG-CGCGaGGUcCGAGUCG- -5'
22957 3' -57.2 NC_005137.2 + 110314 0.66 0.801691
Target:  5'- uAGGCGCAACGuUGCagCGGuGCacgCAGCu -3'
miRNA:   3'- uUCUGCGUUGC-GCGagGUC-CGa--GUCG- -5'
22957 3' -57.2 NC_005137.2 + 93672 0.66 0.801691
Target:  5'- cGGcCGCGuagAUGCGCaaCAGGCcCAGCg -3'
miRNA:   3'- uUCuGCGU---UGCGCGagGUCCGaGUCG- -5'
22957 3' -57.2 NC_005137.2 + 67314 0.66 0.801691
Target:  5'- cAAGAUGUAugGUGgaCgCAGGUUCguGGCa -3'
miRNA:   3'- -UUCUGCGUugCGCgaG-GUCCGAG--UCG- -5'
22957 3' -57.2 NC_005137.2 + 73968 0.66 0.801691
Target:  5'- -uGAcCGCGACGCGUUUuuGGCcaaccugCAGCa -3'
miRNA:   3'- uuCU-GCGUUGCGCGAGguCCGa------GUCG- -5'
22957 3' -57.2 NC_005137.2 + 125032 0.66 0.79254
Target:  5'- -cGGCGUGGCGCagGCaacggagCCGGGCggcgCGGCg -3'
miRNA:   3'- uuCUGCGUUGCG--CGa------GGUCCGa---GUCG- -5'
22957 3' -57.2 NC_005137.2 + 49891 0.66 0.79254
Target:  5'- -cGGCGCAACaGUGUUCCAuGGCUg--- -3'
miRNA:   3'- uuCUGCGUUG-CGCGAGGU-CCGAgucg -5'
22957 3' -57.2 NC_005137.2 + 63795 0.67 0.764224
Target:  5'- -cGACGCGAUGCGCgaccgucgCCGcGGC--GGCg -3'
miRNA:   3'- uuCUGCGUUGCGCGa-------GGU-CCGagUCG- -5'
22957 3' -57.2 NC_005137.2 + 64457 0.67 0.761328
Target:  5'- -uGGCGCAGCGCGCgucacCCGaGCaagcguauugaccaUCGGCg -3'
miRNA:   3'- uuCUGCGUUGCGCGa----GGUcCG--------------AGUCG- -5'
22957 3' -57.2 NC_005137.2 + 27312 0.67 0.731828
Target:  5'- cGGugGCGGCgGCGUUuuGGGCaguggcgaaggugaUCGGCg -3'
miRNA:   3'- uUCugCGUUG-CGCGAggUCCG--------------AGUCG- -5'
22957 3' -57.2 NC_005137.2 + 45262 0.68 0.714737
Target:  5'- -cGACGCGucGCGCGC-CCGcgaguGGCagAGCa -3'
miRNA:   3'- uuCUGCGU--UGCGCGaGGU-----CCGagUCG- -5'
22957 3' -57.2 NC_005137.2 + 5264 0.68 0.694365
Target:  5'- --cGCGCGGCGCaagCCGGGUUCAaGCa -3'
miRNA:   3'- uucUGCGUUGCGcgaGGUCCGAGU-CG- -5'
22957 3' -57.2 NC_005137.2 + 16525 0.68 0.673778
Target:  5'- --uGCGCGugGCuuUCCGGGCUUgauaAGCu -3'
miRNA:   3'- uucUGCGUugCGcgAGGUCCGAG----UCG- -5'
22957 3' -57.2 NC_005137.2 + 75969 0.68 0.663427
Target:  5'- -uGACGCGGCGCGCguu-GGUgcaCGGCg -3'
miRNA:   3'- uuCUGCGUUGCGCGagguCCGa--GUCG- -5'
22957 3' -57.2 NC_005137.2 + 42524 0.68 0.663427
Target:  5'- --cACuuGACGCGCUCCGGGUugUCGGg -3'
miRNA:   3'- uucUGcgUUGCGCGAGGUCCG--AGUCg -5'
22957 3' -57.2 NC_005137.2 + 28050 0.69 0.631212
Target:  5'- -uGGCGCGACGCGCgcugggaugcgCCAgacGGCUguacacgCAGCg -3'
miRNA:   3'- uuCUGCGUUGCGCGa----------GGU---CCGA-------GUCG- -5'
22957 3' -57.2 NC_005137.2 + 2318 0.72 0.451885
Target:  5'- -cGAcCGCAACGCGCUCguGGa--GGCg -3'
miRNA:   3'- uuCU-GCGUUGCGCGAGguCCgagUCG- -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.