miRNA display CGI


Results 1 - 19 of 19 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
4342 5' -45.9 NC_001720.1 + 18390 0.66 0.987397
Target:  5'- ----cGGGUGCc--AGGGCCCGCGAu -3'
miRNA:   3'- uuuuuCCCGUGauuUUUCGGGUGUUc -5'
4342 5' -45.9 NC_001720.1 + 36506 0.66 0.987397
Target:  5'- cGAAuGGGCGgaGAguaaguguauaAGAGCCCGCGAu -3'
miRNA:   3'- uUUUuCCCGUgaUU-----------UUUCGGGUGUUc -5'
4342 5' -45.9 NC_001720.1 + 37839 0.66 0.983282
Target:  5'- ---cAGGGCAUgcacggaaccaaUGGGAAGCCCAgGu- -3'
miRNA:   3'- uuuuUCCCGUG------------AUUUUUCGGGUgUuc -5'
4342 5' -45.9 NC_001720.1 + 7477 0.66 0.983282
Target:  5'- ----cGGGUAUauAAGGGCCCgucGCGAGg -3'
miRNA:   3'- uuuuuCCCGUGauUUUUCGGG---UGUUC- -5'
4342 5' -45.9 NC_001720.1 + 20290 0.67 0.975309
Target:  5'- ---uGGGGCGuCUccGAGGCCUugAGGc -3'
miRNA:   3'- uuuuUCCCGU-GAuuUUUCGGGugUUC- -5'
4342 5' -45.9 NC_001720.1 + 23564 0.67 0.975309
Target:  5'- ----cGGGCuCUucGAGGUCCACGAa -3'
miRNA:   3'- uuuuuCCCGuGAuuUUUCGGGUGUUc -5'
4342 5' -45.9 NC_001720.1 + 22035 0.67 0.975309
Target:  5'- ----uGGGUuCUucAGAGCCCACAc- -3'
miRNA:   3'- uuuuuCCCGuGAuuUUUCGGGUGUuc -5'
4342 5' -45.9 NC_001720.1 + 17486 0.67 0.96864
Target:  5'- ----uGGacGCACUAAAAGGCCCuuuCAAu -3'
miRNA:   3'- uuuuuCC--CGUGAUUUUUCGGGu--GUUc -5'
4342 5' -45.9 NC_001720.1 + 968 0.68 0.956379
Target:  5'- ----cGGGCGCUAGuu--CCCACAGa -3'
miRNA:   3'- uuuuuCCCGUGAUUuuucGGGUGUUc -5'
4342 5' -45.9 NC_001720.1 + 10952 0.68 0.956379
Target:  5'- ---cGGGGCACUGcAAgacGAGCUCAgCGGGg -3'
miRNA:   3'- uuuuUCCCGUGAU-UU---UUCGGGU-GUUC- -5'
4342 5' -45.9 NC_001720.1 + 29488 0.68 0.956379
Target:  5'- -uGGAGuGGCGCggcuaUGGAGAGCCCGaGAGa -3'
miRNA:   3'- uuUUUC-CCGUG-----AUUUUUCGGGUgUUC- -5'
4342 5' -45.9 NC_001720.1 + 30182 0.68 0.951653
Target:  5'- aGAAGAGaGCAgUAGucgcGCCCGCAGGg -3'
miRNA:   3'- -UUUUUCcCGUgAUUuuu-CGGGUGUUC- -5'
4342 5' -45.9 NC_001720.1 + 17967 0.69 0.922971
Target:  5'- ---cAGGGC-CUGAAugaGAGCCUGCAGu -3'
miRNA:   3'- uuuuUCCCGuGAUUU---UUCGGGUGUUc -5'
4342 5' -45.9 NC_001720.1 + 11051 0.69 0.916205
Target:  5'- ---cGGGGCAggcgguCUAcGAAGGCCCGCAc- -3'
miRNA:   3'- uuuuUCCCGU------GAU-UUUUCGGGUGUuc -5'
4342 5' -45.9 NC_001720.1 + 36891 0.7 0.885754
Target:  5'- -cGGAGGGCAgUGGAAAGuUCCAguAGa -3'
miRNA:   3'- uuUUUCCCGUgAUUUUUC-GGGUguUC- -5'
4342 5' -45.9 NC_001720.1 + 13231 0.71 0.850158
Target:  5'- -----aGGCGCUGGAGAGCaggccuCCGCAGGg -3'
miRNA:   3'- uuuuucCCGUGAUUUUUCG------GGUGUUC- -5'
4342 5' -45.9 NC_001720.1 + 6409 0.72 0.787409
Target:  5'- -uAGGGGGCGUUAAugagaaguuucucGAAGCCCACGAa -3'
miRNA:   3'- uuUUUCCCGUGAUU-------------UUUCGGGUGUUc -5'
4342 5' -45.9 NC_001720.1 + 30926 0.76 0.609953
Target:  5'- -cAGGGGGCGCUAcGAgcAGCgCGCAAGg -3'
miRNA:   3'- uuUUUCCCGUGAUuUU--UCGgGUGUUC- -5'
4342 5' -45.9 NC_001720.1 + 21543 1.06 0.008182
Target:  5'- uAAAAAGGGCACUAAAAAGCCCACAAGc -3'
miRNA:   3'- -UUUUUCCCGUGAUUUUUCGGGUGUUC- -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.