miRNA display CGI


Results 1 - 20 of 21 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
30488 3' -53.7 NC_006548.1 + 3627 0.75 0.25317
Target:  5'- aCCGCCUCGGCGcucAGcGUCAuGGUCGGg -3'
miRNA:   3'- gGGUGGAGCUGC---UC-CAGUuCCAGUUg -5'
30488 3' -53.7 NC_006548.1 + 8414 0.66 0.72121
Target:  5'- gCCgGCCUCGAUGAGGgucugCAuguagcGGGUgAu- -3'
miRNA:   3'- -GGgUGGAGCUGCUCCa----GU------UCCAgUug -5'
30488 3' -53.7 NC_006548.1 + 7259 0.67 0.68352
Target:  5'- gCCC-CUgacCGGCGcucuguagcugccGGUCGAGGUCAACc -3'
miRNA:   3'- -GGGuGGa--GCUGCu------------CCAGUUCCAGUUG- -5'
30488 3' -53.7 NC_006548.1 + 36519 0.68 0.597769
Target:  5'- aCCUugACCUCGuCGAGGU--GGGcUCGGCc -3'
miRNA:   3'- -GGG--UGGAGCuGCUCCAguUCC-AGUUG- -5'
30488 3' -53.7 NC_006548.1 + 633 0.68 0.579791
Target:  5'- aUCCACUUCGGCGAGG---AGGuaccguuucuccugcUCGACg -3'
miRNA:   3'- -GGGUGGAGCUGCUCCaguUCC---------------AGUUG- -5'
30488 3' -53.7 NC_006548.1 + 17141 0.69 0.564156
Target:  5'- uUCGCCUUGACcuGGUgAAGGcCGACg -3'
miRNA:   3'- gGGUGGAGCUGcuCCAgUUCCaGUUG- -5'
30488 3' -53.7 NC_006548.1 + 18284 0.7 0.47762
Target:  5'- aCCUACCggGGCGAGGuugUCGAGGUUc-- -3'
miRNA:   3'- -GGGUGGagCUGCUCC---AGUUCCAGuug -5'
30488 3' -53.7 NC_006548.1 + 869 0.66 0.742907
Target:  5'- gCCaguuGCC-CGcCGAGGUCcAGGUCAu- -3'
miRNA:   3'- -GGg---UGGaGCuGCUCCAGuUCCAGUug -5'
30488 3' -53.7 NC_006548.1 + 7167 0.66 0.742907
Target:  5'- gCCGCCUggggcgUGACGAGGcCcuGGugaUCAGCa -3'
miRNA:   3'- gGGUGGA------GCUGCUCCaGuuCC---AGUUG- -5'
30488 3' -53.7 NC_006548.1 + 26751 0.66 0.742907
Target:  5'- gCCACCUcCGACcguguAGGUgAugucGGUCGACu -3'
miRNA:   3'- gGGUGGA-GCUGc----UCCAgUu---CCAGUUG- -5'
30488 3' -53.7 NC_006548.1 + 792 0.66 0.732112
Target:  5'- aUCGCCaagcagauguUCGGCGuGGcCAAGGUCGc- -3'
miRNA:   3'- gGGUGG----------AGCUGCuCCaGUUCCAGUug -5'
30488 3' -53.7 NC_006548.1 + 32800 0.66 0.732112
Target:  5'- cCCCAgCCUgcaaGGCuGAGGUCGAGG--AGCa -3'
miRNA:   3'- -GGGU-GGAg---CUG-CUCCAGUUCCagUUG- -5'
30488 3' -53.7 NC_006548.1 + 17210 0.66 0.72121
Target:  5'- aUCCGCgUCGGCcuucaccAGGUCAAGG-CGAa -3'
miRNA:   3'- -GGGUGgAGCUGc------UCCAGUUCCaGUUg -5'
30488 3' -53.7 NC_006548.1 + 31015 0.66 0.7069
Target:  5'- gCCCAggUUUCGGCGAcccucgguuucgcgGGUCAcgAGGcUCAACg -3'
miRNA:   3'- -GGGU--GGAGCUGCU--------------CCAGU--UCC-AGUUG- -5'
30488 3' -53.7 NC_006548.1 + 7348 0.67 0.658784
Target:  5'- aCCCagcgccugguugACCUCGAcCGGcagcuacagagcgccGGUCAGGGgCAGCg -3'
miRNA:   3'- -GGG------------UGGAGCU-GCU---------------CCAGUUCCaGUUG- -5'
30488 3' -53.7 NC_006548.1 + 30297 0.67 0.642968
Target:  5'- gCCCAgCCgCGACcAGGUCuGGGUUcGCg -3'
miRNA:   3'- -GGGU-GGaGCUGcUCCAGuUCCAGuUG- -5'
30488 3' -53.7 NC_006548.1 + 15930 0.68 0.620347
Target:  5'- uCCUuuaCUCG-CGGGGUgAAGGUCAc- -3'
miRNA:   3'- -GGGug-GAGCuGCUCCAgUUCCAGUug -5'
30488 3' -53.7 NC_006548.1 + 7637 0.74 0.273945
Target:  5'- gUCACCUCcauggccuAUGAGGUCGAGGUCGGg -3'
miRNA:   3'- gGGUGGAGc-------UGCUCCAGUUCCAGUUg -5'
30488 3' -53.7 NC_006548.1 + 23599 0.82 0.091982
Target:  5'- cCCCACCgccUGGCGGGGUCAgcGGGUCAu- -3'
miRNA:   3'- -GGGUGGa--GCUGCUCCAGU--UCCAGUug -5'
30488 3' -53.7 NC_006548.1 + 36578 1.11 0.000796
Target:  5'- gCCCACCUCGACGAGGUCAAGGUCAACc -3'
miRNA:   3'- -GGGUGGAGCUGCUCCAGUUCCAGUUG- -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.