miRNA display CGI


Results 1 - 20 of 23 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
24039 3' -60.4 NC_005262.1 + 63553 0.66 0.454961
Target:  5'- -cCGcGCGAaauGUCCCGccGCCGCCGGCGg -3'
miRNA:   3'- aaGC-CGUUc--CAGGGC--CGGCGGUUGUa -5'
24039 3' -60.4 NC_005262.1 + 16493 0.66 0.445344
Target:  5'- -gCGGCGcAGaaUCCCGGCgGCCGGCc- -3'
miRNA:   3'- aaGCCGU-UCc-AGGGCCGgCGGUUGua -5'
24039 3' -60.4 NC_005262.1 + 50924 0.66 0.433955
Target:  5'- aUCGaGCAcgaaacgaagauGGUgCCGGCCGCCGAg-- -3'
miRNA:   3'- aAGC-CGUu-----------CCAgGGCCGGCGGUUgua -5'
24039 3' -60.4 NC_005262.1 + 11061 0.66 0.426458
Target:  5'- -cCGGCGu--UCCCGGCgCGCCgAACAg -3'
miRNA:   3'- aaGCCGUuccAGGGCCG-GCGG-UUGUa -5'
24039 3' -60.4 NC_005262.1 + 10617 0.66 0.426458
Target:  5'- gUCGGCAuagccGUUUCGGCCGCCcccGCGc -3'
miRNA:   3'- aAGCCGUuc---CAGGGCCGGCGGu--UGUa -5'
24039 3' -60.4 NC_005262.1 + 51033 0.66 0.426458
Target:  5'- gUCGGCuucagCUCGGCgGCCGGCAc -3'
miRNA:   3'- aAGCCGuuccaGGGCCGgCGGUUGUa -5'
24039 3' -60.4 NC_005262.1 + 20364 0.67 0.390158
Target:  5'- -aCGGCcGGGUcaucCCCGGCCGUUuuCGUu -3'
miRNA:   3'- aaGCCGuUCCA----GGGCCGGCGGuuGUA- -5'
24039 3' -60.4 NC_005262.1 + 24916 0.67 0.381404
Target:  5'- aUCGGCAcGG-CgCCGGCCGCgAucGCGa -3'
miRNA:   3'- aAGCCGUuCCaG-GGCCGGCGgU--UGUa -5'
24039 3' -60.4 NC_005262.1 + 42319 0.67 0.370221
Target:  5'- cUCGGCAucggaaccgcgagcGGGUacgUCGuGCCGCCGACGa -3'
miRNA:   3'- aAGCCGU--------------UCCAg--GGC-CGGCGGUUGUa -5'
24039 3' -60.4 NC_005262.1 + 6853 0.67 0.364293
Target:  5'- aUCGGCAucGUgCCCGGCCacgaGCaCAACGa -3'
miRNA:   3'- aAGCCGUucCA-GGGCCGG----CG-GUUGUa -5'
24039 3' -60.4 NC_005262.1 + 30969 0.68 0.339638
Target:  5'- -gCGGCGucaccaUCCGGCCGCCGGCGa -3'
miRNA:   3'- aaGCCGUucca--GGGCCGGCGGUUGUa -5'
24039 3' -60.4 NC_005262.1 + 30847 0.68 0.339638
Target:  5'- --aGGCGAGGUaggcaucacgaUCGGCgGCCGACAUc -3'
miRNA:   3'- aagCCGUUCCAg----------GGCCGgCGGUUGUA- -5'
24039 3' -60.4 NC_005262.1 + 36314 0.69 0.301291
Target:  5'- cUUCGGUggGGggCCGGUgcgcuCGCCGGCAa -3'
miRNA:   3'- -AAGCCGuuCCagGGCCG-----GCGGUUGUa -5'
24039 3' -60.4 NC_005262.1 + 58950 0.69 0.300559
Target:  5'- gUCGGCGcgcAGcaGUCgaaccagCCGGCCGCCGGCGg -3'
miRNA:   3'- aAGCCGU---UC--CAG-------GGCCGGCGGUUGUa -5'
24039 3' -60.4 NC_005262.1 + 57696 0.7 0.259142
Target:  5'- -gCGGCAAGGUgCUuucgguaGGCCGCCAcgACGc -3'
miRNA:   3'- aaGCCGUUCCAgGG-------CCGGCGGU--UGUa -5'
24039 3' -60.4 NC_005262.1 + 30640 0.71 0.211856
Target:  5'- cUCGGCAAGGUgCCCGcGUCGgaCAACGc -3'
miRNA:   3'- aAGCCGUUCCA-GGGC-CGGCg-GUUGUa -5'
24039 3' -60.4 NC_005262.1 + 41502 0.71 0.206429
Target:  5'- gUCGGCGcauacgAGGUgCCGG-CGCCGACGa -3'
miRNA:   3'- aAGCCGU------UCCAgGGCCgGCGGUUGUa -5'
24039 3' -60.4 NC_005262.1 + 60151 0.72 0.171728
Target:  5'- aUgGGCGAaGUaCCCGGCCGCCGugAa -3'
miRNA:   3'- aAgCCGUUcCA-GGGCCGGCGGUugUa -5'
24039 3' -60.4 NC_005262.1 + 60377 0.72 0.171728
Target:  5'- -gCGGCgAAGGUCgCCGGCCGCaagaucgucggCGGCAUg -3'
miRNA:   3'- aaGCCG-UUCCAG-GGCCGGCG-----------GUUGUA- -5'
24039 3' -60.4 NC_005262.1 + 60201 0.72 0.167218
Target:  5'- -cCGGCAAGGagCCGGCCGgCGAgGUc -3'
miRNA:   3'- aaGCCGUUCCagGGCCGGCgGUUgUA- -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.