miRNA display CGI


Results 1 - 16 of 16 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
23278 3' -64.1 NC_005259.1 + 34544 0.66 0.345691
Target:  5'- aGGCAGCCUcaGCuugCCGUCGGGGCcgacGGcGAGg -3'
miRNA:   3'- -CCGUCGGG--CG---GGUAGCUCCGc---CC-CUU- -5'
23278 3' -64.1 NC_005259.1 + 29946 0.66 0.345691
Target:  5'- cGCGGCCCGgUCGcggcuggUGGGGCGGGcGGu -3'
miRNA:   3'- cCGUCGGGCgGGUa------GCUCCGCCC-CUu -5'
23278 3' -64.1 NC_005259.1 + 68533 0.66 0.330377
Target:  5'- aGCuGCCCGCCacgcgucgaCAUCGGGGUGGuuGAg -3'
miRNA:   3'- cCGuCGGGCGG---------GUAGCUCCGCCccUU- -5'
23278 3' -64.1 NC_005259.1 + 32718 0.66 0.315569
Target:  5'- uGGCA-CUCuCCCGagUGAGGUGGGGAAu -3'
miRNA:   3'- -CCGUcGGGcGGGUa-GCUCCGCCCCUU- -5'
23278 3' -64.1 NC_005259.1 + 41470 0.67 0.280762
Target:  5'- aGCGGCCCGUgacgCCGUCGAgcacgaccucGGCGGuGGc- -3'
miRNA:   3'- cCGUCGGGCG----GGUAGCU----------CCGCC-CCuu -5'
23278 3' -64.1 NC_005259.1 + 63686 0.68 0.259504
Target:  5'- cGGCGcgccggggaucugcGCCUGCCCAgCGGGGauCGGGGc- -3'
miRNA:   3'- -CCGU--------------CGGGCGGGUaGCUCC--GCCCCuu -5'
23278 3' -64.1 NC_005259.1 + 58533 0.68 0.249074
Target:  5'- gGGCAaauuCCUGCCCGUCGAGGUuacggcucGGGcGGu -3'
miRNA:   3'- -CCGUc---GGGCGGGUAGCUCCG--------CCC-CUu -5'
23278 3' -64.1 NC_005259.1 + 2341 0.68 0.2259
Target:  5'- cGCAGaaacCCCGCCCcUCaccGGGCGGGGu- -3'
miRNA:   3'- cCGUC----GGGCGGGuAGc--UCCGCCCCuu -5'
23278 3' -64.1 NC_005259.1 + 32549 0.69 0.20458
Target:  5'- uGCuguuGgCCGCCCcggCGAGcGCGGGGAu -3'
miRNA:   3'- cCGu---CgGGCGGGua-GCUC-CGCCCCUu -5'
23278 3' -64.1 NC_005259.1 + 58778 0.69 0.194588
Target:  5'- gGGCGcuGUgCGCCgGUCGAGGCGGuGAu -3'
miRNA:   3'- -CCGU--CGgGCGGgUAGCUCCGCCcCUu -5'
23278 3' -64.1 NC_005259.1 + 41710 0.7 0.171461
Target:  5'- uGCAG-CCGCCgCAUacCGGcGGCGGGGAGg -3'
miRNA:   3'- cCGUCgGGCGG-GUA--GCU-CCGCCCCUU- -5'
23278 3' -64.1 NC_005259.1 + 52465 0.7 0.16714
Target:  5'- uGGCAGaccaCCGCCCgcgaauacGUCGAGGCGGu--- -3'
miRNA:   3'- -CCGUCg---GGCGGG--------UAGCUCCGCCccuu -5'
23278 3' -64.1 NC_005259.1 + 8741 0.71 0.158791
Target:  5'- aGGCAGUCaGCCCGUCGAGGuCGaGGc-- -3'
miRNA:   3'- -CCGUCGGgCGGGUAGCUCC-GC-CCcuu -5'
23278 3' -64.1 NC_005259.1 + 9076 0.73 0.110211
Target:  5'- uGGCcacagcauaGGCCCguuGCCCGcCGAgGGCGGGGAAc -3'
miRNA:   3'- -CCG---------UCGGG---CGGGUaGCU-CCGCCCCUU- -5'
23278 3' -64.1 NC_005259.1 + 52390 0.74 0.096513
Target:  5'- cGCAGCCUGCCucgggcCAUCGAGGUGuGGGc- -3'
miRNA:   3'- cCGUCGGGCGG------GUAGCUCCGC-CCCuu -5'
23278 3' -64.1 NC_005259.1 + 26678 1.07 0.000251
Target:  5'- cGGCAGCCCGCCCAUCGAGGCGGGGAAc -3'
miRNA:   3'- -CCGUCGGGCGGGUAGCUCCGCCCCUU- -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.