miRNA display CGI


Results 1 - 20 of 26 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
12306 5' -55.4 NC_003313.1 + 22886 0.66 0.53412
Target:  5'- cGCAGCCGCUGaguaaCAGCAUCAggAAUguGGc -3'
miRNA:   3'- aCGUCGGUGGC-----GUCGUGGU--UUGguUC- -5'
12306 5' -55.4 NC_003313.1 + 27872 0.66 0.522933
Target:  5'- aGCGGgCAUgGCgAGCACCAaaAACCu-- -3'
miRNA:   3'- aCGUCgGUGgCG-UCGUGGU--UUGGuuc -5'
12306 5' -55.4 NC_003313.1 + 24690 0.66 0.522933
Target:  5'- aUGCcGCCAUUGguGCGCUAucGCUggGc -3'
miRNA:   3'- -ACGuCGGUGGCguCGUGGUu-UGGuuC- -5'
12306 5' -55.4 NC_003313.1 + 2706 0.66 0.510733
Target:  5'- aUGgAGUCGuCCGCAGUaauACCuugcaaaAAACCAAGg -3'
miRNA:   3'- -ACgUCGGU-GGCGUCG---UGG-------UUUGGUUC- -5'
12306 5' -55.4 NC_003313.1 + 17607 0.66 0.50084
Target:  5'- gGCAGCUcauGCCGCuGCugCGgaaAGCCu-- -3'
miRNA:   3'- aCGUCGG---UGGCGuCGugGU---UUGGuuc -5'
12306 5' -55.4 NC_003313.1 + 30716 0.66 0.50084
Target:  5'- --aAGCCGCCGCgccaAGCACCu-GCCc-- -3'
miRNA:   3'- acgUCGGUGGCG----UCGUGGuuUGGuuc -5'
12306 5' -55.4 NC_003313.1 + 7616 0.66 0.494292
Target:  5'- cUGgAGCCagaucaccuaaaaagACCuCAGCACCAgccaaaGACCAAGc -3'
miRNA:   3'- -ACgUCGG---------------UGGcGUCGUGGU------UUGGUUC- -5'
12306 5' -55.4 NC_003313.1 + 32846 0.66 0.489948
Target:  5'- cUGCGGUgGCUGCAGguCCc-GCCAu- -3'
miRNA:   3'- -ACGUCGgUGGCGUCguGGuuUGGUuc -5'
12306 5' -55.4 NC_003313.1 + 31164 0.66 0.479168
Target:  5'- gUGUAGCCgaGCagaaagaGCAGCGCgggCGAGCUAAGa -3'
miRNA:   3'- -ACGUCGG--UGg------CGUCGUG---GUUUGGUUC- -5'
12306 5' -55.4 NC_003313.1 + 4858 0.67 0.468505
Target:  5'- aGUgaAGCCgugaaccuGCCGCAGUACCAcgcACCAc- -3'
miRNA:   3'- aCG--UCGG--------UGGCGUCGUGGUu--UGGUuc -5'
12306 5' -55.4 NC_003313.1 + 32351 0.67 0.46533
Target:  5'- aGUaAGCCGCCGCAuugaugccGCugguaacauuacagACCAAACCGAu -3'
miRNA:   3'- aCG-UCGGUGGCGU--------CG--------------UGGUUUGGUUc -5'
12306 5' -55.4 NC_003313.1 + 32686 0.67 0.447554
Target:  5'- aGCGGCgaUACUGCGGCGCacuuuACCGAu -3'
miRNA:   3'- aCGUCG--GUGGCGUCGUGguu--UGGUUc -5'
12306 5' -55.4 NC_003313.1 + 30372 0.67 0.427134
Target:  5'- uUGguGCCAgUGUuacCGCCAAGCCGAa -3'
miRNA:   3'- -ACguCGGUgGCGuc-GUGGUUUGGUUc -5'
12306 5' -55.4 NC_003313.1 + 9107 0.68 0.397567
Target:  5'- -aCAGCCACgGCAGCGC---ACCAu- -3'
miRNA:   3'- acGUCGGUGgCGUCGUGguuUGGUuc -5'
12306 5' -55.4 NC_003313.1 + 4789 0.68 0.388007
Target:  5'- aUGuCAGCCAUCGCAgaaacGCGCCAG--CAAGu -3'
miRNA:   3'- -AC-GUCGGUGGCGU-----CGUGGUUugGUUC- -5'
12306 5' -55.4 NC_003313.1 + 24453 0.68 0.369347
Target:  5'- uUGCAGCCAguaUCGaCAGCuuaggaCAAACCAAa -3'
miRNA:   3'- -ACGUCGGU---GGC-GUCGug----GUUUGGUUc -5'
12306 5' -55.4 NC_003313.1 + 24778 0.69 0.36025
Target:  5'- gGCAGUgACCacaGCGGUACUGAGCgGAGu -3'
miRNA:   3'- aCGUCGgUGG---CGUCGUGGUUUGgUUC- -5'
12306 5' -55.4 NC_003313.1 + 12787 0.69 0.34166
Target:  5'- gGCAuGUUACCGCAGCaaggugcgaauguGCCGGACCc-- -3'
miRNA:   3'- aCGU-CGGUGGCGUCG-------------UGGUUUGGuuc -5'
12306 5' -55.4 NC_003313.1 + 4485 0.7 0.317146
Target:  5'- cGUAGUUGCCGUGGCGCU--GCCAGa -3'
miRNA:   3'- aCGUCGGUGGCGUCGUGGuuUGGUUc -5'
12306 5' -55.4 NC_003313.1 + 9328 0.71 0.270697
Target:  5'- aUGCGGCUcggcaACuCGCA-CACCAAACCAAc -3'
miRNA:   3'- -ACGUCGG-----UG-GCGUcGUGGUUUGGUUc -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.