miRNA display CGI


Results 1 - 12 of 12 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
7197 3' -60.5 NC_001900.1 + 25361 1.04 0.000644
Target:  5'- -aAGAUGGUCCCGGCUCCCCAGGAGCa -3'
miRNA:   3'- ucUCUACCAGGGCCGAGGGGUCCUCG- -5'
7197 3' -60.5 NC_001900.1 + 25022 0.73 0.14376
Target:  5'- --cGGUGGUCCCGGUgCCCguGGccaGGCg -3'
miRNA:   3'- ucuCUACCAGGGCCGaGGGguCC---UCG- -5'
7197 3' -60.5 NC_001900.1 + 20743 0.71 0.187615
Target:  5'- aAGcuGUGG-CUCGGCUCauuccaCCGGGAGCa -3'
miRNA:   3'- -UCucUACCaGGGCCGAGg-----GGUCCUCG- -5'
7197 3' -60.5 NC_001900.1 + 26658 0.71 0.192093
Target:  5'- cAGAGGUGGUUuuuagcccgaggaCCGGaUCCCCgagaGGGGGCc -3'
miRNA:   3'- -UCUCUACCAG-------------GGCCgAGGGG----UCCUCG- -5'
7197 3' -60.5 NC_001900.1 + 9215 0.7 0.236749
Target:  5'- cGAGAUGGUCUCGGCgUUCgAGGAc- -3'
miRNA:   3'- uCUCUACCAGGGCCGaGGGgUCCUcg -5'
7197 3' -60.5 NC_001900.1 + 14026 0.69 0.248412
Target:  5'- cGAGAaGGUCUaccggaugCGGUUCCCUcgcuccuucaccaAGGAGCa -3'
miRNA:   3'- uCUCUaCCAGG--------GCCGAGGGG-------------UCCUCG- -5'
7197 3' -60.5 NC_001900.1 + 15508 0.69 0.255379
Target:  5'- aGGAGAgcuUCCCgcaGGCUCCCUAcGAGCg -3'
miRNA:   3'- -UCUCUaccAGGG---CCGAGGGGUcCUCG- -5'
7197 3' -60.5 NC_001900.1 + 8696 0.68 0.296221
Target:  5'- aGGAGAUGcugaCCCGGCUCgCC--GAGCa -3'
miRNA:   3'- -UCUCUACca--GGGCCGAGgGGucCUCG- -5'
7197 3' -60.5 NC_001900.1 + 22397 0.68 0.329281
Target:  5'- cGGGGAUccGGUCCUcgGGCUaaaaaccaccucugaCCUguGGAGCg -3'
miRNA:   3'- -UCUCUA--CCAGGG--CCGA---------------GGGguCCUCG- -5'
7197 3' -60.5 NC_001900.1 + 35787 0.67 0.358301
Target:  5'- -cAGGUcGUCCUGcgaccaGUUCUCCAGGAGCa -3'
miRNA:   3'- ucUCUAcCAGGGC------CGAGGGGUCCUCG- -5'
7197 3' -60.5 NC_001900.1 + 32119 0.67 0.361634
Target:  5'- uGGGGAU-GUCCUGGUagguguugggagcgaUCUCCcGGAGCu -3'
miRNA:   3'- -UCUCUAcCAGGGCCG---------------AGGGGuCCUCG- -5'
7197 3' -60.5 NC_001900.1 + 7074 0.66 0.401487
Target:  5'- cGAGAUGGUCCUcacGCUCCaUCGcGAGUc -3'
miRNA:   3'- uCUCUACCAGGGc--CGAGG-GGUcCUCG- -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.