miRNA display CGI


Results 1 - 20 of 52 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
1554 5' -64.1 NC_001347.2 + 182169 0.66 0.685233
Target:  5'- cGGGuCCcuggaAGCGUgugugGGCCGGCccucggggugcggGUGGCGg -3'
miRNA:   3'- -CCCuGGcg---UCGCA-----CCGGCCG-------------CACCGC- -5'
1554 5' -64.1 NC_001347.2 + 1843 0.66 0.676875
Target:  5'- cGGcGCCGCAccccGCGUcgcugcugacGGCCGuGCGUcGGCa -3'
miRNA:   3'- -CCcUGGCGU----CGCA----------CCGGC-CGCA-CCGc -5'
1554 5' -64.1 NC_001347.2 + 2094 0.66 0.676875
Target:  5'- --aGCCGUacGGCGccGCCGGCGggGGCGc -3'
miRNA:   3'- cccUGGCG--UCGCacCGGCCGCa-CCGC- -5'
1554 5' -64.1 NC_001347.2 + 191638 0.66 0.674083
Target:  5'- -aGGCCGUcagguGCGaGGCCgaacggugaaucuuGGCGUGGCGc -3'
miRNA:   3'- ccCUGGCGu----CGCaCCGG--------------CCGCACCGC- -5'
1554 5' -64.1 NC_001347.2 + 178067 0.66 0.66756
Target:  5'- gGGGACUGauccaGGCGUcGGCguugGGCaagGUGGCGc -3'
miRNA:   3'- -CCCUGGCg----UCGCA-CCGg---CCG---CACCGC- -5'
1554 5' -64.1 NC_001347.2 + 136086 0.66 0.658221
Target:  5'- cGGGcCCGCGGac-GGaCCGGCGccgGGCc -3'
miRNA:   3'- -CCCuGGCGUCgcaCC-GGCCGCa--CCGc -5'
1554 5' -64.1 NC_001347.2 + 7803 0.66 0.648864
Target:  5'- uGGGuACCGUcacuagugacguGGCGUGacgaaGCUGGUacgGUGGCGg -3'
miRNA:   3'- -CCC-UGGCG------------UCGCAC-----CGGCCG---CACCGC- -5'
1554 5' -64.1 NC_001347.2 + 155314 0.66 0.648864
Target:  5'- cGGGGCCG-GGC-UGGUCGGgggaagaaaCGUGGUGu -3'
miRNA:   3'- -CCCUGGCgUCGcACCGGCC---------GCACCGC- -5'
1554 5' -64.1 NC_001347.2 + 42 0.67 0.639496
Target:  5'- uGGGugUGUcggGGCGcGGCCGG-GUGGg- -3'
miRNA:   3'- -CCCugGCG---UCGCaCCGGCCgCACCgc -5'
1554 5' -64.1 NC_001347.2 + 31103 0.67 0.630123
Target:  5'- --aACCGgAGCGUgcuccauugccGGCCGGCGUccaGGCu -3'
miRNA:   3'- cccUGGCgUCGCA-----------CCGGCCGCA---CCGc -5'
1554 5' -64.1 NC_001347.2 + 95469 0.67 0.620752
Target:  5'- uGGGCgCGCGucacGCG-GcGCCGGUGUcGGCGg -3'
miRNA:   3'- cCCUG-GCGU----CGCaC-CGGCCGCA-CCGC- -5'
1554 5' -64.1 NC_001347.2 + 2199 0.67 0.611388
Target:  5'- uGGGuuCGaCAGCGaUGGCgGGUccGGCGg -3'
miRNA:   3'- -CCCugGC-GUCGC-ACCGgCCGcaCCGC- -5'
1554 5' -64.1 NC_001347.2 + 77863 0.67 0.611388
Target:  5'- --uGCUGCAG-GUGGCCGaGCGccugGGCGc -3'
miRNA:   3'- cccUGGCGUCgCACCGGC-CGCa---CCGC- -5'
1554 5' -64.1 NC_001347.2 + 181741 0.67 0.611388
Target:  5'- -cGACCGCuGCGUGcGCCgacGGCGUuucaaGGUGu -3'
miRNA:   3'- ccCUGGCGuCGCAC-CGG---CCGCA-----CCGC- -5'
1554 5' -64.1 NC_001347.2 + 138815 0.67 0.602036
Target:  5'- -aGACCGCAGUgGUGGCCacgGUGGUGu -3'
miRNA:   3'- ccCUGGCGUCG-CACCGGccgCACCGC- -5'
1554 5' -64.1 NC_001347.2 + 138223 0.67 0.592704
Target:  5'- gGGGugUGUAGCuUGuaCGGCGUuuugucGGCGg -3'
miRNA:   3'- -CCCugGCGUCGcACcgGCCGCA------CCGC- -5'
1554 5' -64.1 NC_001347.2 + 117898 0.68 0.583395
Target:  5'- cGGGGCgGCGGCG-GGuCCcGUGaUGGCa -3'
miRNA:   3'- -CCCUGgCGUCGCaCC-GGcCGC-ACCGc -5'
1554 5' -64.1 NC_001347.2 + 104337 0.68 0.582466
Target:  5'- uGGACCGCuggauccGGCacgcGGCCGGCGUagaacGGCc -3'
miRNA:   3'- cCCUGGCG-------UCGca--CCGGCCGCA-----CCGc -5'
1554 5' -64.1 NC_001347.2 + 190143 0.68 0.574117
Target:  5'- cGGGGCCGCAaccGgGUucuGCCGGCaUGGgGg -3'
miRNA:   3'- -CCCUGGCGU---CgCAc--CGGCCGcACCgC- -5'
1554 5' -64.1 NC_001347.2 + 13923 0.68 0.559344
Target:  5'- gGGGcgucggagaguauaaACUGgGGCG-GGCgCGGgGUGGCGa -3'
miRNA:   3'- -CCC---------------UGGCgUCGCaCCG-GCCgCACCGC- -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.