miRNA display CGI


Results 1 - 20 of 167 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
19291 3' -63.1 NC_004685.1 + 70 0.66 0.390961
Target:  5'- -gCCGGgGCgGGCGC-GCGCCcgugugGACGCGc -3'
miRNA:   3'- cgGGUCgCG-UCGCGuCGCGG------CUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 130 0.74 0.099845
Target:  5'- -aCCGGCGCgGGCGCGGCuGCCGGgGUg -3'
miRNA:   3'- cgGGUCGCG-UCGCGUCG-CGGCUgCGu -5'
19291 3' -63.1 NC_004685.1 + 176 0.74 0.10532
Target:  5'- uGCCCuuGCGCGGCGUGcGCGCggguuuCGGCGCGa -3'
miRNA:   3'- -CGGGu-CGCGUCGCGU-CGCG------GCUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 537 0.77 0.061362
Target:  5'- cGCCCGccaGCAGCGCgcgGGUGUCGACGCAc -3'
miRNA:   3'- -CGGGUcg-CGUCGCG---UCGCGGCUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 731 0.72 0.137167
Target:  5'- cGCCguGCG-AGCcgaGGUGCCGACGCAg -3'
miRNA:   3'- -CGGguCGCgUCGcg-UCGCGGCUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 1077 0.69 0.251907
Target:  5'- uGCCC-GCGCAGUccuGCGG-GCgGAUGCGg -3'
miRNA:   3'- -CGGGuCGCGUCG---CGUCgCGgCUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 1312 0.67 0.32984
Target:  5'- aCCCggGGCGCAcgcacacucggacccGCGCGGCGC--ACGCAc -3'
miRNA:   3'- cGGG--UCGCGU---------------CGCGUCGCGgcUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 1765 0.67 0.326825
Target:  5'- cGCCCcGCGCGuucGCGCAcGUGUCG-CGUg -3'
miRNA:   3'- -CGGGuCGCGU---CGCGU-CGCGGCuGCGu -5'
19291 3' -63.1 NC_004685.1 + 1790 0.8 0.039532
Target:  5'- uGCCCAGUGUucgacggccAGCGCGaCGCCGGCGCGc -3'
miRNA:   3'- -CGGGUCGCG---------UCGCGUcGCGGCUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 1970 0.69 0.22281
Target:  5'- gGCgUCGGUGgGGCGCucccGCGUCGGCGCu -3'
miRNA:   3'- -CG-GGUCGCgUCGCGu---CGCGGCUGCGu -5'
19291 3' -63.1 NC_004685.1 + 2171 0.66 0.374177
Target:  5'- aGUCUgcgGGCGCAGUGUgucgauGGCGCgGACGa- -3'
miRNA:   3'- -CGGG---UCGCGUCGCG------UCGCGgCUGCgu -5'
19291 3' -63.1 NC_004685.1 + 2332 0.66 0.36597
Target:  5'- -aCCAGUugacGCGGCGCAcGuCGCCGAgGUu -3'
miRNA:   3'- cgGGUCG----CGUCGCGU-C-GCGGCUgCGu -5'
19291 3' -63.1 NC_004685.1 + 2394 0.69 0.239322
Target:  5'- aGCUuggCGGCGCGGUcguucucGCAGUGCCagacGACGCGg -3'
miRNA:   3'- -CGG---GUCGCGUCG-------CGUCGCGG----CUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 2558 0.7 0.211995
Target:  5'- uGCCCuccaGGCuGCAcuGCGCcGCGCCGAgcguCGCAa -3'
miRNA:   3'- -CGGG----UCG-CGU--CGCGuCGCGGCU----GCGU- -5'
19291 3' -63.1 NC_004685.1 + 2749 0.66 0.373351
Target:  5'- uGgCCAGCGUcucgucgGGCaCGGUGCCGcgGCGCGc -3'
miRNA:   3'- -CgGGUCGCG-------UCGcGUCGCGGC--UGCGU- -5'
19291 3' -63.1 NC_004685.1 + 2914 0.67 0.318641
Target:  5'- cCCCAGUGcCGGUGCGGCggGCCaguucuuggucugGAUGCAc -3'
miRNA:   3'- cGGGUCGC-GUCGCGUCG--CGG-------------CUGCGU- -5'
19291 3' -63.1 NC_004685.1 + 2965 0.74 0.10532
Target:  5'- cGCaCCAGCGUucgguccagauGGCGCGGuCGUCGGCGUg -3'
miRNA:   3'- -CG-GGUCGCG-----------UCGCGUC-GCGGCUGCGu -5'
19291 3' -63.1 NC_004685.1 + 3402 0.7 0.191717
Target:  5'- -aCCAGCGCuuccGGCGacCAGCgGCCGAUGCc -3'
miRNA:   3'- cgGGUCGCG----UCGC--GUCG-CGGCUGCGu -5'
19291 3' -63.1 NC_004685.1 + 3488 0.71 0.173161
Target:  5'- uGCCCAGCGUGGCGUcgaAGCuGCUGuucUGCGg -3'
miRNA:   3'- -CGGGUCGCGUCGCG---UCG-CGGCu--GCGU- -5'
19291 3' -63.1 NC_004685.1 + 3696 0.71 0.173161
Target:  5'- gGCUCGGCGCgGGUGUAucGCGCCGaguacgggcugGCGCAg -3'
miRNA:   3'- -CGGGUCGCG-UCGCGU--CGCGGC-----------UGCGU- -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.