miRNA display CGI


Results 1 - 20 of 63 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
1594 3' -52.5 NC_001347.2 + 176485 1.1 0.009713
Target:  5'- gCCAGACCUCCAACAACACCGUCGUCGc -3'
miRNA:   3'- -GGUCUGGAGGUUGUUGUGGCAGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 119293 0.8 0.514416
Target:  5'- aCAGcaGCCUCCGuaACAGCACgGUCGUCa -3'
miRNA:   3'- gGUC--UGGAGGU--UGUUGUGgCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 188976 0.76 0.750694
Target:  5'- cCCuGGgCUCCGACGGCGCCGUUGccCGg -3'
miRNA:   3'- -GGuCUgGAGGUUGUUGUGGCAGCa-GC- -5'
1594 3' -52.5 NC_001347.2 + 130690 0.74 0.830521
Target:  5'- aCGGAUCgacaCGGgGACACCGUCGUCu -3'
miRNA:   3'- gGUCUGGag--GUUgUUGUGGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 128313 0.74 0.838629
Target:  5'- aCGGACUUgCAGCGGC-UCGUCGUCa -3'
miRNA:   3'- gGUCUGGAgGUUGUUGuGGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 81961 0.74 0.838629
Target:  5'- uCCAGGCCgacugcagCaauaAACAACACUGcUCGUCGg -3'
miRNA:   3'- -GGUCUGGa-------Gg---UUGUUGUGGC-AGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 56143 0.73 0.854297
Target:  5'- cCCAuGCCUCCAGCGACucAUgGUCGcUCGg -3'
miRNA:   3'- -GGUcUGGAGGUUGUUG--UGgCAGC-AGC- -5'
1594 3' -52.5 NC_001347.2 + 175847 0.73 0.883276
Target:  5'- gCCGcACCgCCAACAGCACCGccggcuaCGUCGa -3'
miRNA:   3'- -GGUcUGGaGGUUGUUGUGGCa------GCAGC- -5'
1594 3' -52.5 NC_001347.2 + 7619 0.72 0.908848
Target:  5'- --uGGCCUUCAgagACcGCGCCGUCGUUGu -3'
miRNA:   3'- gguCUGGAGGU---UGuUGUGGCAGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 189282 0.72 0.914683
Target:  5'- gUCAG-CCUgggaCAcACAACACCGUCGUCc -3'
miRNA:   3'- -GGUCuGGAg---GU-UGUUGUGGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 93599 0.71 0.930816
Target:  5'- cCCAGACCUCgCGAagacgcgaGACACCGgcacccuuccacUCGUCc -3'
miRNA:   3'- -GGUCUGGAG-GUUg-------UUGUGGC------------AGCAGc -5'
1594 3' -52.5 NC_001347.2 + 222847 0.71 0.935254
Target:  5'- gCCGG-CCUCCAggaggagAUGGCGCUGUgCGUCGu -3'
miRNA:   3'- -GGUCuGGAGGU-------UGUUGUGGCA-GCAGC- -5'
1594 3' -52.5 NC_001347.2 + 5683 0.71 0.935736
Target:  5'- -aAGACg-CCGACGAC-UCGUCGUCGg -3'
miRNA:   3'- ggUCUGgaGGUUGUUGuGGCAGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 107248 0.71 0.935736
Target:  5'- gCCGGACCU-----GACGCUGUCGUCa -3'
miRNA:   3'- -GGUCUGGAgguugUUGUGGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 86504 0.71 0.939043
Target:  5'- cCCAaACCgCCAGCAGCcgggugagcuccucAUCGUCGUCGu -3'
miRNA:   3'- -GGUcUGGaGGUUGUUG--------------UGGCAGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 12791 0.71 0.940427
Target:  5'- aCCAGGCCggCCGGCGuuuucacuACGCCGUgGaCGa -3'
miRNA:   3'- -GGUCUGGa-GGUUGU--------UGUGGCAgCaGC- -5'
1594 3' -52.5 NC_001347.2 + 182888 0.7 0.953147
Target:  5'- gCUGGGCCUCgcGCGGCucGCCGUCGUUc -3'
miRNA:   3'- -GGUCUGGAGguUGUUG--UGGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 80966 0.7 0.956945
Target:  5'- gCGGACUaCCAcCGGCGCCGcCGUUGc -3'
miRNA:   3'- gGUCUGGaGGUuGUUGUGGCaGCAGC- -5'
1594 3' -52.5 NC_001347.2 + 205510 0.7 0.960527
Target:  5'- -gGGACCUCCccCGAggaACUGUCGUCa -3'
miRNA:   3'- ggUCUGGAGGuuGUUg--UGGCAGCAGc -5'
1594 3' -52.5 NC_001347.2 + 167954 0.7 0.963897
Target:  5'- aCCGGGCUUCUggU--CGCCGUCGauaUCGg -3'
miRNA:   3'- -GGUCUGGAGGuuGuuGUGGCAGC---AGC- -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.