miRNA display CGI


Results 1 - 20 of 27 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
28567 3' -53 NC_005946.1 + 82931 0.66 0.943586
Target:  5'- aAACGcuuacUCcAGG-CaCAGGGAGGCCUUCa -3'
miRNA:   3'- gUUGC-----AGuUUCaG-GUUCCUCCGGGAG- -5'
28567 3' -53 NC_005946.1 + 3550 0.66 0.943586
Target:  5'- aCGACGUCuuuc-CCAAGaGGGGCCUg- -3'
miRNA:   3'- -GUUGCAGuuucaGGUUC-CUCCGGGag -5'
28567 3' -53 NC_005946.1 + 35647 0.66 0.938703
Target:  5'- aCGACGagGAuaguGUCCAGGGAcaGGUCCcCa -3'
miRNA:   3'- -GUUGCagUUu---CAGGUUCCU--CCGGGaG- -5'
28567 3' -53 NC_005946.1 + 64257 0.66 0.935648
Target:  5'- aCGGCGUCAGAggccgccugagccauGUCCAGGGccucccuGGUCUUUa -3'
miRNA:   3'- -GUUGCAGUUU---------------CAGGUUCCu------CCGGGAG- -5'
28567 3' -53 NC_005946.1 + 26958 0.66 0.928147
Target:  5'- uGGCGUCAGuGuUCCAGGcGGGCuuCCUCu -3'
miRNA:   3'- gUUGCAGUUuC-AGGUUCcUCCG--GGAG- -5'
28567 3' -53 NC_005946.1 + 60266 0.66 0.916532
Target:  5'- --uUGUCAGGggaauGUCCAGGGGGGCagUCu -3'
miRNA:   3'- guuGCAGUUU-----CAGGUUCCUCCGggAG- -5'
28567 3' -53 NC_005946.1 + 93871 0.67 0.910328
Target:  5'- gCAGCGguagaAGAGcCCAGGGgacAGGCCUUUa -3'
miRNA:   3'- -GUUGCag---UUUCaGGUUCC---UCCGGGAG- -5'
28567 3' -53 NC_005946.1 + 740 0.67 0.897136
Target:  5'- uGGCGUCGAGGUCCGAc-AGGaCCUUg -3'
miRNA:   3'- gUUGCAGUUUCAGGUUccUCCgGGAG- -5'
28567 3' -53 NC_005946.1 + 7031 0.67 0.890155
Target:  5'- -uGCGUCuuGGgu--GGGAuGGCCCUCa -3'
miRNA:   3'- guUGCAGuuUCagguUCCU-CCGGGAG- -5'
28567 3' -53 NC_005946.1 + 77298 0.68 0.859768
Target:  5'- gAGgGUCGcaGAGcUCGAGGAGGCUUUCg -3'
miRNA:   3'- gUUgCAGU--UUCaGGUUCCUCCGGGAG- -5'
28567 3' -53 NC_005946.1 + 99885 0.68 0.850754
Target:  5'- gGugGUCAuGGUCCucAGGAacucgucaaucauGGUCCUCu -3'
miRNA:   3'- gUugCAGUuUCAGGu-UCCU-------------CCGGGAG- -5'
28567 3' -53 NC_005946.1 + 21226 0.69 0.798148
Target:  5'- aCGGCGUCAGGGagaugcuggCCAAGGuGGacggCCUCa -3'
miRNA:   3'- -GUUGCAGUUUCa--------GGUUCCuCCg---GGAG- -5'
28567 3' -53 NC_005946.1 + 8115 0.69 0.798148
Target:  5'- -cACGUCAGAgucccuccccuGUCCAGGGuGGCCa-- -3'
miRNA:   3'- guUGCAGUUU-----------CAGGUUCCuCCGGgag -5'
28567 3' -53 NC_005946.1 + 51764 0.7 0.778903
Target:  5'- ----aUCGAGGaCCGucGGAGGCCCUCc -3'
miRNA:   3'- guugcAGUUUCaGGUu-CCUCCGGGAG- -5'
28567 3' -53 NC_005946.1 + 61738 0.7 0.75807
Target:  5'- uGACGUCccccgugucguguAGGGUCCucuugucuGuGAGGCCCUCu -3'
miRNA:   3'- gUUGCAG-------------UUUCAGGuu------C-CUCCGGGAG- -5'
28567 3' -53 NC_005946.1 + 73413 0.7 0.738749
Target:  5'- gCAACGcCAAGGgcUCCAAGGAGGacuaCgUCa -3'
miRNA:   3'- -GUUGCaGUUUC--AGGUUCCUCCg---GgAG- -5'
28567 3' -53 NC_005946.1 + 67286 0.71 0.707514
Target:  5'- ---aGUCAGAGUCUAcGGcguAGGCCCUa -3'
miRNA:   3'- guugCAGUUUCAGGUuCC---UCCGGGAg -5'
28567 3' -53 NC_005946.1 + 102277 0.71 0.695886
Target:  5'- gGGCGUCAGAGUCUAuggucauGGGGGcGUCCg- -3'
miRNA:   3'- gUUGCAGUUUCAGGU-------UCCUC-CGGGag -5'
28567 3' -53 NC_005946.1 + 10685 0.71 0.686319
Target:  5'- uGACGgcCAgcAGGUCC-AGGAGGuCCCUCc -3'
miRNA:   3'- gUUGCa-GU--UUCAGGuUCCUCC-GGGAG- -5'
28567 3' -53 NC_005946.1 + 35332 0.71 0.686319
Target:  5'- gCAGCGUCucccAGGUCCcaucccAGGGAGGCCg-- -3'
miRNA:   3'- -GUUGCAGu---UUCAGG------UUCCUCCGGgag -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.