miRNA display CGI


Results 1 - 20 of 88 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
19113 3' -55.2 NC_004684.1 + 3276 1.11 0.000924
Target:  5'- aCCAUGCGCACCGAGUUCGAGGCCAUGg -3'
miRNA:   3'- -GGUACGCGUGGCUCAAGCUCCGGUAC- -5'
19113 3' -55.2 NC_004684.1 + 17016 0.69 0.618217
Target:  5'- aCAUGCGCACCGAG--CGGGugaagaacGCCGc- -3'
miRNA:   3'- gGUACGCGUGGCUCaaGCUC--------CGGUac -5'
19113 3' -55.2 NC_004684.1 + 16451 0.68 0.639875
Target:  5'- aCCAUcGUGCGCCu-GgaCGAGGCCGg- -3'
miRNA:   3'- -GGUA-CGCGUGGcuCaaGCUCCGGUac -5'
19113 3' -55.2 NC_004684.1 + 35855 0.66 0.795743
Target:  5'- uCCAguucGCGggcagggaACCGAgGUUCGcgcGGGCCGUGg -3'
miRNA:   3'- -GGUa---CGCg-------UGGCU-CAAGC---UCCGGUAC- -5'
19113 3' -55.2 NC_004684.1 + 23221 0.72 0.442186
Target:  5'- ---cGCGCGCCGGGUUCaucGCCGUGc -3'
miRNA:   3'- gguaCGCGUGGCUCAAGcucCGGUAC- -5'
19113 3' -55.2 NC_004684.1 + 43685 0.71 0.460609
Target:  5'- ---aGCGCGCCGccgcccaGGUUgGAGGCCAc- -3'
miRNA:   3'- gguaCGCGUGGC-------UCAAgCUCCGGUac -5'
19113 3' -55.2 NC_004684.1 + 18101 0.71 0.501682
Target:  5'- gCAagGC-CACCGAGcgCGAGGCCGg- -3'
miRNA:   3'- gGUa-CGcGUGGCUCaaGCUCCGGUac -5'
19113 3' -55.2 NC_004684.1 + 15505 0.71 0.501682
Target:  5'- uCgGUGCcacCACCGAGgcCGAGGCCuUGg -3'
miRNA:   3'- -GgUACGc--GUGGCUCaaGCUCCGGuAC- -5'
19113 3' -55.2 NC_004684.1 + 46602 0.7 0.522295
Target:  5'- gCguUGCGUGCCGguGGcUUCGGGGCCAc- -3'
miRNA:   3'- -GguACGCGUGGC--UC-AAGCUCCGGUac -5'
19113 3' -55.2 NC_004684.1 + 1059 0.69 0.596605
Target:  5'- cCCcgGCGuCACCGGgacGUUCGAGcGCUAc- -3'
miRNA:   3'- -GGuaCGC-GUGGCU---CAAGCUC-CGGUac -5'
19113 3' -55.2 NC_004684.1 + 65210 0.7 0.553797
Target:  5'- gCCGUGCgGCACC----UCGcGGGCCAUGa -3'
miRNA:   3'- -GGUACG-CGUGGcucaAGC-UCCGGUAC- -5'
19113 3' -55.2 NC_004684.1 + 17990 0.7 0.522295
Target:  5'- uCCAgguggugGCGCugACCGAGUacggcggcaacaUCGgcaAGGCCAUGg -3'
miRNA:   3'- -GGUa------CGCG--UGGCUCA------------AGC---UCCGGUAC- -5'
19113 3' -55.2 NC_004684.1 + 58782 0.79 0.16455
Target:  5'- gCcgGUGCACCGGgcuuGUUCGAGGCCAc- -3'
miRNA:   3'- gGuaCGCGUGGCU----CAAGCUCCGGUac -5'
19113 3' -55.2 NC_004684.1 + 41097 0.7 0.564427
Target:  5'- gCCGagcUGCGUACCGAuGgcCGAGGUCAc- -3'
miRNA:   3'- -GGU---ACGCGUGGCU-CaaGCUCCGGUac -5'
19113 3' -55.2 NC_004684.1 + 29725 0.77 0.208355
Target:  5'- uCCAccugGCGCACCGGG-UCGAugccugaccgggcGGCCAUGg -3'
miRNA:   3'- -GGUa---CGCGUGGCUCaAGCU-------------CCGGUAC- -5'
19113 3' -55.2 NC_004684.1 + 29767 0.71 0.510915
Target:  5'- gCCA-GCGCACCGAcggcGUUCGGcaugggcGGCCGg- -3'
miRNA:   3'- -GGUaCGCGUGGCU----CAAGCU-------CCGGUac -5'
19113 3' -55.2 NC_004684.1 + 3329 0.69 0.575111
Target:  5'- -gGUGCGCAaggcgcucaaCGAgguGUUCGAGGCCGa- -3'
miRNA:   3'- ggUACGCGUg---------GCU---CAAGCUCCGGUac -5'
19113 3' -55.2 NC_004684.1 + 37190 0.69 0.618217
Target:  5'- aCCAUGgacuCGCCGGGUUUGGuGGCCAc- -3'
miRNA:   3'- -GGUACgc--GUGGCUCAAGCU-CCGGUac -5'
19113 3' -55.2 NC_004684.1 + 7335 0.73 0.395785
Target:  5'- gCCGggccGCGCGCCacGAGUgCGAGGCC-UGg -3'
miRNA:   3'- -GGUa---CGCGUGG--CUCAaGCUCCGGuAC- -5'
19113 3' -55.2 NC_004684.1 + 54318 0.71 0.46159
Target:  5'- aCCGggGCGCACCGAG-UCGAuGCCc-- -3'
miRNA:   3'- -GGUa-CGCGUGGCUCaAGCUcCGGuac -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.