miRNA display CGI


Results 1 - 20 of 29 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
11421 5' -57.1 NC_003085.1 + 27534 0.67 0.53994
Target:  5'- aGCUGGCgaugCCGGacagCACCUccaUCUUCUc -3'
miRNA:   3'- cCGACCGa---GGCCg---GUGGGaa-AGAAGG- -5'
11421 5' -57.1 NC_003085.1 + 36727 0.66 0.572083
Target:  5'- cGCaccacCUCCGGCC-CCUUUUCUUgCCg -3'
miRNA:   3'- cCGacc--GAGGCCGGuGGGAAAGAA-GG- -5'
11421 5' -57.1 NC_003085.1 + 8623 0.66 0.582905
Target:  5'- aGGUUGGCcagcCCGGCCGCCg--UCa--- -3'
miRNA:   3'- -CCGACCGa---GGCCGGUGGgaaAGaagg -5'
11421 5' -57.1 NC_003085.1 + 34429 0.66 0.582905
Target:  5'- gGGCUgcGGCUUgGGCCgGCCCag-CggcaagUCCa -3'
miRNA:   3'- -CCGA--CCGAGgCCGG-UGGGaaaGa-----AGG- -5'
11421 5' -57.1 NC_003085.1 + 28329 0.66 0.604661
Target:  5'- -----cUUCCGGCCGCCCUUg--UCCc -3'
miRNA:   3'- ccgaccGAGGCCGGUGGGAAagaAGG- -5'
11421 5' -57.1 NC_003085.1 + 13558 0.66 0.615579
Target:  5'- cGGCUGGCcgUGGCaugGCCCUgggacUCCg -3'
miRNA:   3'- -CCGACCGagGCCGg--UGGGAaaga-AGG- -5'
11421 5' -57.1 NC_003085.1 + 41098 1.15 0.000232
Target:  5'- cGGCUGGCUCCGGCCACCCUUUCUUCCa -3'
miRNA:   3'- -CCGACCGAGGCCGGUGGGAAAGAAGG- -5'
11421 5' -57.1 NC_003085.1 + 34760 0.73 0.252539
Target:  5'- gGGCUGGcCUUCGGCCuugGCCU--UCgUCCa -3'
miRNA:   3'- -CCGACC-GAGGCCGG---UGGGaaAGaAGG- -5'
11421 5' -57.1 NC_003085.1 + 27352 0.69 0.409005
Target:  5'- cGGCgccgGGCUCugcugggCGGCCugCUUcugcgccUCUUCCg -3'
miRNA:   3'- -CCGa---CCGAG-------GCCGGugGGAa------AGAAGG- -5'
11421 5' -57.1 NC_003085.1 + 35118 0.69 0.409929
Target:  5'- uGGCaGG-UCCGGCC-CCUcgUCUUCUc -3'
miRNA:   3'- -CCGaCCgAGGCCGGuGGGaaAGAAGG- -5'
11421 5' -57.1 NC_003085.1 + 45898 0.67 0.518851
Target:  5'- aGGCgcgcuUGcGC-CCGGCCGCCUUgagCguggUCCa -3'
miRNA:   3'- -CCG-----AC-CGaGGCCGGUGGGAaa-Ga---AGG- -5'
11421 5' -57.1 NC_003085.1 + 24307 0.68 0.467688
Target:  5'- aGGCcacGGUcgCCGGCCACaCCgcgCUUCg -3'
miRNA:   3'- -CCGa--CCGa-GGCCGGUG-GGaaaGAAGg -5'
11421 5' -57.1 NC_003085.1 + 6374 0.7 0.382762
Target:  5'- uGCUGGCggCCGGUCG---UUUCUUCCu -3'
miRNA:   3'- cCGACCGa-GGCCGGUgggAAAGAAGG- -5'
11421 5' -57.1 NC_003085.1 + 25090 0.67 0.550593
Target:  5'- aGGCcauugaUGGC-CCGGCCGCCaaaggCcgUCCc -3'
miRNA:   3'- -CCG------ACCGaGGCCGGUGGgaaa-Ga-AGG- -5'
11421 5' -57.1 NC_003085.1 + 36029 0.66 0.582905
Target:  5'- cGGCcaugGGCacgCCGuaUGCCCccgUCUUCCg -3'
miRNA:   3'- -CCGa---CCGa--GGCcgGUGGGaa-AGAAGG- -5'
11421 5' -57.1 NC_003085.1 + 27179 0.66 0.572083
Target:  5'- cGCUGGCUUCGGCguCUCUcacgcaUUCgUCa -3'
miRNA:   3'- cCGACCGAGGCCGguGGGA------AAGaAGg -5'
11421 5' -57.1 NC_003085.1 + 24142 0.66 0.572083
Target:  5'- cGGCUGGUacUCCGGCUAUgaCgugCUaCCg -3'
miRNA:   3'- -CCGACCG--AGGCCGGUGg-GaaaGAaGG- -5'
11421 5' -57.1 NC_003085.1 + 2310 0.66 0.572083
Target:  5'- cGCUGGCcugccucgccaCCGGCCGCCg---CUUCa -3'
miRNA:   3'- cCGACCGa----------GGCCGGUGGgaaaGAAGg -5'
11421 5' -57.1 NC_003085.1 + 45357 0.7 0.355135
Target:  5'- uGGCUGGCagccuggaccgcCCGGcCCACCCagaaCUUCUg -3'
miRNA:   3'- -CCGACCGa-----------GGCC-GGUGGGaaa-GAAGG- -5'
11421 5' -57.1 NC_003085.1 + 39205 0.67 0.498096
Target:  5'- cGCaGGCUCCGGUacggACCCccUCggCCa -3'
miRNA:   3'- cCGaCCGAGGCCGg---UGGGaaAGaaGG- -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.