miRNA display CGI


Results 1 - 20 of 60 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
7229 3' -52.7 NC_001900.1 + 543 0.74 0.351019
Target:  5'- cGGCCuGGAACauGCCGCGACAucGCGa-- -3'
miRNA:   3'- aCCGGuCCUUG--UGGUGCUGU--UGUagu -5'
7229 3' -52.7 NC_001900.1 + 44443 0.66 0.784751
Target:  5'- cUGGCCGGGAGuccccCGCCACG-CGAa---- -3'
miRNA:   3'- -ACCGGUCCUU-----GUGGUGCuGUUguagu -5'
7229 3' -52.7 NC_001900.1 + 18345 0.66 0.794887
Target:  5'- aGGCCaAGGAACugGCCA--GCAGCGUgAa -3'
miRNA:   3'- aCCGG-UCCUUG--UGGUgcUGUUGUAgU- -5'
7229 3' -52.7 NC_001900.1 + 9138 0.66 0.824158
Target:  5'- gGGCCGGGugGugGCCGucCGAUGACAg-- -3'
miRNA:   3'- aCCGGUCC--UugUGGU--GCUGUUGUagu -5'
7229 3' -52.7 NC_001900.1 + 32682 0.7 0.562905
Target:  5'- cGGCCAGcGAACuCCGCGAguuCGUCu -3'
miRNA:   3'- aCCGGUC-CUUGuGGUGCUguuGUAGu -5'
7229 3' -52.7 NC_001900.1 + 22623 0.7 0.574117
Target:  5'- cGGCCAGGAcuACACCGa-GCAG-AUCAu -3'
miRNA:   3'- aCCGGUCCU--UGUGGUgcUGUUgUAGU- -5'
7229 3' -52.7 NC_001900.1 + 2946 0.69 0.619385
Target:  5'- cGGCCA--AGCACCAgGGCAAgccCAUCGg -3'
miRNA:   3'- aCCGGUccUUGUGGUgCUGUU---GUAGU- -5'
7229 3' -52.7 NC_001900.1 + 35831 0.69 0.630757
Target:  5'- gUGGgaacagcuCCGGGAACACCuCGGCucgguACAUCu -3'
miRNA:   3'- -ACC--------GGUCCUUGUGGuGCUGu----UGUAGu -5'
7229 3' -52.7 NC_001900.1 + 23885 0.68 0.663703
Target:  5'- cGGCCAGG-GCACCcCGAguucgguCAcccGCGUCAc -3'
miRNA:   3'- aCCGGUCCuUGUGGuGCU-------GU---UGUAGU- -5'
7229 3' -52.7 NC_001900.1 + 21159 0.66 0.784751
Target:  5'- cUGGCCGGuGGACAguCCGCucCgGGCAUCAa -3'
miRNA:   3'- -ACCGGUC-CUUGU--GGUGcuG-UUGUAGU- -5'
7229 3' -52.7 NC_001900.1 + 3860 0.68 0.698619
Target:  5'- cGGCgCGGuGAACACCGu--CAACGUCGa -3'
miRNA:   3'- aCCG-GUC-CUUGUGGUgcuGUUGUAGU- -5'
7229 3' -52.7 NC_001900.1 + 10399 0.69 0.653493
Target:  5'- cGGCCAGGGcgugAUcCCGCGugAGCGg-- -3'
miRNA:   3'- aCCGGUCCU----UGuGGUGCugUUGUagu -5'
7229 3' -52.7 NC_001900.1 + 28731 0.74 0.376813
Target:  5'- cGGCCcGGucuguCACCACGACAucaggaaaaugguGCAUCGu -3'
miRNA:   3'- aCCGGuCCuu---GUGGUGCUGU-------------UGUAGU- -5'
7229 3' -52.7 NC_001900.1 + 23066 0.67 0.753378
Target:  5'- gUGGCUGcGGGACACCGCGAgccaggUAGCcUCc -3'
miRNA:   3'- -ACCGGU-CCUUGUGGUGCU------GUUGuAGu -5'
7229 3' -52.7 NC_001900.1 + 33716 0.73 0.404809
Target:  5'- aGcGCCuGGAACGCCAgGagcugguGCAGCGUCAg -3'
miRNA:   3'- aC-CGGuCCUUGUGGUgC-------UGUUGUAGU- -5'
7229 3' -52.7 NC_001900.1 + 22007 0.69 0.640993
Target:  5'- cUGGCUccGGGAGCugGCUgaugaggACGGCAACAUCc -3'
miRNA:   3'- -ACCGG--UCCUUG--UGG-------UGCUGUUGUAGu -5'
7229 3' -52.7 NC_001900.1 + 7147 0.67 0.763984
Target:  5'- cGGCCGGaucgugauGAAgGCCAgCGGCuuCAUCGg -3'
miRNA:   3'- aCCGGUC--------CUUgUGGU-GCUGuuGUAGU- -5'
7229 3' -52.7 NC_001900.1 + 1196 0.66 0.794887
Target:  5'- cGGCCGGGGcgguuuagGCACC--GGCAACG-CAg -3'
miRNA:   3'- aCCGGUCCU--------UGUGGugCUGUUGUaGU- -5'
7229 3' -52.7 NC_001900.1 + 3513 0.71 0.507894
Target:  5'- cUGGCCGGuGACAuCCAgGACGcCAUCGa -3'
miRNA:   3'- -ACCGGUCcUUGU-GGUgCUGUuGUAGU- -5'
7229 3' -52.7 NC_001900.1 + 8056 0.69 0.608025
Target:  5'- gGGCCAGGGGCcUgACGGCAAgGcCAa -3'
miRNA:   3'- aCCGGUCCUUGuGgUGCUGUUgUaGU- -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.