miRNA display CGI


Results 1 - 20 of 29 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
1622 3' -51.2 NC_001347.2 + 142089 1.1 0.011698
Target:  5'- cUCGCGCCGCGAGAACGUGCUUUUUGAc -3'
miRNA:   3'- -AGCGCGGCGCUCUUGCACGAAAAACU- -5'
1622 3' -51.2 NC_001347.2 + 203350 0.74 0.859501
Target:  5'- aCGCGCCGCGAGcuCGUcggagGCUUUUc-- -3'
miRNA:   3'- aGCGCGGCGCUCuuGCA-----CGAAAAacu -5'
1622 3' -51.2 NC_001347.2 + 165545 0.73 0.901827
Target:  5'- -aGgGCCGCGAGAgcGCGUGCa------ -3'
miRNA:   3'- agCgCGGCGCUCU--UGCACGaaaaacu -5'
1622 3' -51.2 NC_001347.2 + 140333 0.73 0.901827
Target:  5'- cUGCGCCGCGGGGcUGUGCgaggccugUGGg -3'
miRNA:   3'- aGCGCGGCGCUCUuGCACGaaaa----ACU- -5'
1622 3' -51.2 NC_001347.2 + 171387 0.72 0.914095
Target:  5'- uUCGCGCUGCGAGcaauCGUGCcccaaggUGGu -3'
miRNA:   3'- -AGCGCGGCGCUCuu--GCACGaaaa---ACU- -5'
1622 3' -51.2 NC_001347.2 + 5567 0.72 0.93575
Target:  5'- gUUGCGCgGUGGGGGCGUGCc------ -3'
miRNA:   3'- -AGCGCGgCGCUCUUGCACGaaaaacu -5'
1622 3' -51.2 NC_001347.2 + 167228 0.7 0.961084
Target:  5'- cCGCGCCGCGAG-ACGgacGCa------ -3'
miRNA:   3'- aGCGCGGCGCUCuUGCa--CGaaaaacu -5'
1622 3' -51.2 NC_001347.2 + 182859 0.7 0.967712
Target:  5'- gCGCGCCGUGGGAuCG-GCUUc---- -3'
miRNA:   3'- aGCGCGGCGCUCUuGCaCGAAaaacu -5'
1622 3' -51.2 NC_001347.2 + 38862 0.7 0.973497
Target:  5'- gCGCGCCGCuAGGaucaGCGUGUUgUUUGc -3'
miRNA:   3'- aGCGCGGCGcUCU----UGCACGAaAAACu -5'
1622 3' -51.2 NC_001347.2 + 192727 0.69 0.97609
Target:  5'- cUCGCGCCGUcaacAGCGUGCcUUUUGc -3'
miRNA:   3'- -AGCGCGGCGcuc-UUGCACGaAAAACu -5'
1622 3' -51.2 NC_001347.2 + 147871 0.69 0.984628
Target:  5'- -gGCGCCGCGGGAAag-GCcg-UUGGc -3'
miRNA:   3'- agCGCGGCGCUCUUgcaCGaaaAACU- -5'
1622 3' -51.2 NC_001347.2 + 2238 0.68 0.986345
Target:  5'- cCGUGCCGCGcgccaugcuGGugGUGCUgcugGAc -3'
miRNA:   3'- aGCGCGGCGCu--------CUugCACGAaaaaCU- -5'
1622 3' -51.2 NC_001347.2 + 97520 0.68 0.986345
Target:  5'- gCGCGCCGcCGAGAuuCGUcGCUgcaccguagUGAu -3'
miRNA:   3'- aGCGCGGC-GCUCUu-GCA-CGAaaa------ACU- -5'
1622 3' -51.2 NC_001347.2 + 141325 0.68 0.98791
Target:  5'- cCGCGCgggcaagggcaaCGCGGGuAGCGUGUUUUUUc- -3'
miRNA:   3'- aGCGCG------------GCGCUC-UUGCACGAAAAAcu -5'
1622 3' -51.2 NC_001347.2 + 194414 0.68 0.98791
Target:  5'- gCGCccgaaGCCGCGcGAGCGUGCgagcgGGg -3'
miRNA:   3'- aGCG-----CGGCGCuCUUGCACGaaaaaCU- -5'
1622 3' -51.2 NC_001347.2 + 88367 0.68 0.989333
Target:  5'- gCGCuGCCGCGAGAcgACGUGg------- -3'
miRNA:   3'- aGCG-CGGCGCUCU--UGCACgaaaaacu -5'
1622 3' -51.2 NC_001347.2 + 81456 0.68 0.990621
Target:  5'- -gGCGUCGCGA--ACGUGCacggUGAa -3'
miRNA:   3'- agCGCGGCGCUcuUGCACGaaaaACU- -5'
1622 3' -51.2 NC_001347.2 + 198582 0.68 0.991784
Target:  5'- gCGUGCuCGCGuAGAgcGCGUGUcguagUUUUGAc -3'
miRNA:   3'- aGCGCG-GCGC-UCU--UGCACGa----AAAACU- -5'
1622 3' -51.2 NC_001347.2 + 53743 0.67 0.99283
Target:  5'- gCGUGCCGCGGGuGCGcGCa------ -3'
miRNA:   3'- aGCGCGGCGCUCuUGCaCGaaaaacu -5'
1622 3' -51.2 NC_001347.2 + 153868 0.67 0.994603
Target:  5'- cCGCGCCgaGCGGcGACGUGCa------ -3'
miRNA:   3'- aGCGCGG--CGCUcUUGCACGaaaaacu -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.