miRNA display CGI


Results 1 - 15 of 15 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
22255 3' -51.4 NC_005045.1 + 24719 0.67 0.805984
Target:  5'- gGGCGAUGCGGUcuacUCCGAgGGccuGAc- -3'
miRNA:   3'- -CCGCUACGUCGu---AGGUUgCCuu-CUac -5'
22255 3' -51.4 NC_005045.1 + 25503 0.67 0.795888
Target:  5'- aGGuUGAUGCGGC--CCGugGGGucAGGUGu -3'
miRNA:   3'- -CC-GCUACGUCGuaGGUugCCU--UCUAC- -5'
22255 3' -51.4 NC_005045.1 + 28580 0.67 0.785603
Target:  5'- cGuCGAUGCGGUggcccuggauAUCgAGCGGGAGGUc -3'
miRNA:   3'- cC-GCUACGUCG----------UAGgUUGCCUUCUAc -5'
22255 3' -51.4 NC_005045.1 + 16953 0.67 0.775143
Target:  5'- aGCaGGUGCAGguCGUCCAGCGGGGc--- -3'
miRNA:   3'- cCG-CUACGUC--GUAGGUUGCCUUcuac -5'
22255 3' -51.4 NC_005045.1 + 29162 0.67 0.767723
Target:  5'- aGGCGGacuucagccugaagaUGCAGCGauucaucgCCAAcaagggcCGGGAGAUGa -3'
miRNA:   3'- -CCGCU---------------ACGUCGUa-------GGUU-------GCCUUCUAC- -5'
22255 3' -51.4 NC_005045.1 + 17070 0.68 0.753746
Target:  5'- cGCGGcgGCGGCAUCUuguucaGGAAGAa- -3'
miRNA:   3'- cCGCUa-CGUCGUAGGuug---CCUUCUac -5'
22255 3' -51.4 NC_005045.1 + 27453 0.68 0.742835
Target:  5'- aGGCG--GCGGCcUCCAGCGGcuaccuGGUGu -3'
miRNA:   3'- -CCGCuaCGUCGuAGGUUGCCuu----CUAC- -5'
22255 3' -51.4 NC_005045.1 + 38431 0.68 0.709416
Target:  5'- cGGuCGAUGUugauGGUGUCgGACGGAucgcAGGUGa -3'
miRNA:   3'- -CC-GCUACG----UCGUAGgUUGCCU----UCUAC- -5'
22255 3' -51.4 NC_005045.1 + 38373 0.69 0.686697
Target:  5'- uGGUGGcgGCAGCGauaUCCGAUGcGggGAUc -3'
miRNA:   3'- -CCGCUa-CGUCGU---AGGUUGC-CuuCUAc -5'
22255 3' -51.4 NC_005045.1 + 15057 0.69 0.652216
Target:  5'- cGGCGGUGCcGCAggUCUAAugcgccugcuauCGGAAGAg- -3'
miRNA:   3'- -CCGCUACGuCGU--AGGUU------------GCCUUCUac -5'
22255 3' -51.4 NC_005045.1 + 29729 0.7 0.629106
Target:  5'- gGGcCGAUGCAGacuUCCAACaGcGGGUGg -3'
miRNA:   3'- -CC-GCUACGUCgu-AGGUUGcCuUCUAC- -5'
22255 3' -51.4 NC_005045.1 + 7267 0.7 0.617549
Target:  5'- aGGCGGgcUGCGGCcUuuGugGGAGGAa- -3'
miRNA:   3'- -CCGCU--ACGUCGuAggUugCCUUCUac -5'
22255 3' -51.4 NC_005045.1 + 11847 0.73 0.440859
Target:  5'- cGGCGAUGgAGUGUgCCGGCcuGAAGGUGg -3'
miRNA:   3'- -CCGCUACgUCGUA-GGUUGc-CUUCUAC- -5'
22255 3' -51.4 NC_005045.1 + 36100 0.73 0.427695
Target:  5'- aGGUGAUGCAGCGguUCCAGuaaccacgccagcuCGGAucGAUGu -3'
miRNA:   3'- -CCGCUACGUCGU--AGGUU--------------GCCUu-CUAC- -5'
22255 3' -51.4 NC_005045.1 + 13483 1.1 0.001437
Target:  5'- gGGCGAUGCAGCAUCCAACGGAAGAUGc -3'
miRNA:   3'- -CCGCUACGUCGUAGGUUGCCUUCUAC- -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.