miRNA display CGI


Results 1 - 20 of 24 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
16289 5' -53.1 NC_004084.1 + 18 0.66 0.843489
Target:  5'- cUUCGAAGUCgAGgUCGuG-UCGGCc -3'
miRNA:   3'- aAAGCUUCAGgUCaAGCuCgAGCCGc -5'
16289 5' -53.1 NC_004084.1 + 7241 0.66 0.834543
Target:  5'- -cUCGAcGaUCGGcgCGuGCUCGGCGa -3'
miRNA:   3'- aaAGCUuCaGGUCaaGCuCGAGCCGC- -5'
16289 5' -53.1 NC_004084.1 + 27146 0.66 0.825377
Target:  5'- --gCGAccGG-CCAcGUUCGAGCUCGaccGCGg -3'
miRNA:   3'- aaaGCU--UCaGGU-CAAGCUCGAGC---CGC- -5'
16289 5' -53.1 NC_004084.1 + 33640 0.66 0.816
Target:  5'- cUUCGAgaaGGUCUucgGGUUUGAGUUCGccaGCGa -3'
miRNA:   3'- aAAGCU---UCAGG---UCAAGCUCGAGC---CGC- -5'
16289 5' -53.1 NC_004084.1 + 54573 0.66 0.806424
Target:  5'- --cCGAGGuUCCGGUg-GAGCcgucgUCGGCGu -3'
miRNA:   3'- aaaGCUUC-AGGUCAagCUCG-----AGCCGC- -5'
16289 5' -53.1 NC_004084.1 + 4468 0.66 0.806424
Target:  5'- --aCGA--UCgAGUUCGAGCU-GGCGa -3'
miRNA:   3'- aaaGCUucAGgUCAAGCUCGAgCCGC- -5'
16289 5' -53.1 NC_004084.1 + 16920 0.66 0.806424
Target:  5'- -aUCGuggccGGGUgCGGUUCG-GCaUCGGCGg -3'
miRNA:   3'- aaAGC-----UUCAgGUCAAGCuCG-AGCCGC- -5'
16289 5' -53.1 NC_004084.1 + 52389 0.67 0.776607
Target:  5'- -cUCGAGGaCCucGUugaacUCGAGUUCGGCu -3'
miRNA:   3'- aaAGCUUCaGGu-CA-----AGCUCGAGCCGc -5'
16289 5' -53.1 NC_004084.1 + 22588 0.67 0.775587
Target:  5'- -aUCGgcGUCUGGgggggccUUCGuGCUCGGCc -3'
miRNA:   3'- aaAGCuuCAGGUC-------AAGCuCGAGCCGc -5'
16289 5' -53.1 NC_004084.1 + 19517 0.67 0.766343
Target:  5'- --gCGAAcgCCGGUUCGAGCUCGa-- -3'
miRNA:   3'- aaaGCUUcaGGUCAAGCUCGAGCcgc -5'
16289 5' -53.1 NC_004084.1 + 13763 0.67 0.755937
Target:  5'- -cUCGAGGUCgCGcuGggCGGGCUCGGa- -3'
miRNA:   3'- aaAGCUUCAG-GU--CaaGCUCGAGCCgc -5'
16289 5' -53.1 NC_004084.1 + 6231 0.67 0.749629
Target:  5'- cUUCGAAcucGUCUAGgugaUCGAGCgguucgucgacguggUCGGCGu -3'
miRNA:   3'- aAAGCUU---CAGGUCa---AGCUCG---------------AGCCGC- -5'
16289 5' -53.1 NC_004084.1 + 40568 0.68 0.702184
Target:  5'- aUUCGAccgacaucucGG-CCGucUCGAGCUCGGCu -3'
miRNA:   3'- aAAGCU----------UCaGGUcaAGCUCGAGCCGc -5'
16289 5' -53.1 NC_004084.1 + 45905 0.69 0.680104
Target:  5'- -cUCGGA-UCCAGcUCGAGCaucUCGGCc -3'
miRNA:   3'- aaAGCUUcAGGUCaAGCUCG---AGCCGc -5'
16289 5' -53.1 NC_004084.1 + 52498 0.69 0.680104
Target:  5'- --aCGAAGUCCAGUugauggUCcAGCUcguaCGGCGu -3'
miRNA:   3'- aaaGCUUCAGGUCA------AGcUCGA----GCCGC- -5'
16289 5' -53.1 NC_004084.1 + 5691 0.69 0.656719
Target:  5'- -gUCGAGGUCCgcuggguugAGUUCGAggacgucGCUCGGg- -3'
miRNA:   3'- aaAGCUUCAGG---------UCAAGCU-------CGAGCCgc -5'
16289 5' -53.1 NC_004084.1 + 11327 0.7 0.624276
Target:  5'- -gUUGAAGuUCCAGaugaGAGCUCGGuCGa -3'
miRNA:   3'- aaAGCUUC-AGGUCaag-CUCGAGCC-GC- -5'
16289 5' -53.1 NC_004084.1 + 990 0.7 0.60192
Target:  5'- gUUCGAGguguuGUCCAccUCGAGCUcgcCGGCGa -3'
miRNA:   3'- aAAGCUU-----CAGGUcaAGCUCGA---GCCGC- -5'
16289 5' -53.1 NC_004084.1 + 7453 0.7 0.590777
Target:  5'- -cUCGGAGUCCGacGgcgacUCGAGCggcgaCGGCGa -3'
miRNA:   3'- aaAGCUUCAGGU--Ca----AGCUCGa----GCCGC- -5'
16289 5' -53.1 NC_004084.1 + 38720 0.7 0.568609
Target:  5'- -gUCGAAGUCguGggaGuGCUCGGUGa -3'
miRNA:   3'- aaAGCUUCAGguCaagCuCGAGCCGC- -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.