miRNA display CGI


Results 1 - 20 of 39 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
28483 3' -54.8 NC_005946.1 + 44699 0.66 0.892066
Target:  5'- gAgCAGuGCCUggGCAGGCUGAgggccaacGGGGGGa -3'
miRNA:   3'- gUgGUUcCGGG--UGUCCGAUU--------UCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 103544 0.66 0.885005
Target:  5'- aGCCu-GGCCgAgAGGUacugcaUGAGGGGGGu -3'
miRNA:   3'- gUGGuuCCGGgUgUCCG------AUUUCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 43764 0.66 0.877704
Target:  5'- cCGCCucccGCUCACGGcGCagccagGGAGAGGGg -3'
miRNA:   3'- -GUGGuuc-CGGGUGUC-CGa-----UUUCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 18737 0.66 0.877704
Target:  5'- aACCAcuuGGCguuguaucucCCGCAccuGGuCUGAGGAGGGa -3'
miRNA:   3'- gUGGUu--CCG----------GGUGU---CC-GAUUUCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 34602 0.66 0.870166
Target:  5'- cCACUcGGGCUCgACGGGC--AGGAGGc -3'
miRNA:   3'- -GUGGuUCCGGG-UGUCCGauUUCUCCc -5'
28483 3' -54.8 NC_005946.1 + 10449 0.66 0.870166
Target:  5'- cCGCCGcAGGUgggagacccgCCGCAGGCUcGAGAGc- -3'
miRNA:   3'- -GUGGU-UCCG----------GGUGUCCGAuUUCUCcc -5'
28483 3' -54.8 NC_005946.1 + 2990 0.66 0.870166
Target:  5'- ---aGGGGCCgGCAGGUUucAGGGGa -3'
miRNA:   3'- guggUUCCGGgUGUCCGAuuUCUCCc -5'
28483 3' -54.8 NC_005946.1 + 57618 0.66 0.862399
Target:  5'- gGCCcuGAGGCCCGgguaAGGgUGcuGGGGGu -3'
miRNA:   3'- gUGG--UUCCGGGUg---UCCgAUuuCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 38183 0.66 0.862399
Target:  5'- cCACCAcGGUgaCCuCGGGCUGAGGGacgucGGGc -3'
miRNA:   3'- -GUGGUuCCG--GGuGUCCGAUUUCU-----CCC- -5'
28483 3' -54.8 NC_005946.1 + 71341 0.67 0.843696
Target:  5'- gGCCAGGGCCUuccugucccucCAGGCcGgcagggaaucugccGAGGGGGu -3'
miRNA:   3'- gUGGUUCCGGGu----------GUCCGaU--------------UUCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 34286 0.67 0.820351
Target:  5'- gGCUGAGGaCCCcCAGGCacccAGAGAuGGGc -3'
miRNA:   3'- gUGGUUCC-GGGuGUCCGa---UUUCU-CCC- -5'
28483 3' -54.8 NC_005946.1 + 65762 0.68 0.783353
Target:  5'- gGCUggaGAGGCUCuccgGCGGGCaUAAacAGAGGGg -3'
miRNA:   3'- gUGG---UUCCGGG----UGUCCG-AUU--UCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 37239 0.68 0.783353
Target:  5'- uGCUggGGU--ACAGGCUAGAGAaauccaGGGg -3'
miRNA:   3'- gUGGuuCCGggUGUCCGAUUUCU------CCC- -5'
28483 3' -54.8 NC_005946.1 + 93673 0.68 0.783353
Target:  5'- gCAUCAGGGacgugaCACAGGgUA-AGAGGGa -3'
miRNA:   3'- -GUGGUUCCgg----GUGUCCgAUuUCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 11715 0.68 0.773714
Target:  5'- gGCCAGGGUCuCugAGGUUAucgccgcguacAGGAGGc -3'
miRNA:   3'- gUGGUUCCGG-GugUCCGAU-----------UUCUCCc -5'
28483 3' -54.8 NC_005946.1 + 11895 0.68 0.763938
Target:  5'- uGCCAGGGCCCGCAGGg--------- -3'
miRNA:   3'- gUGGUUCCGGGUGUCCgauuucuccc -5'
28483 3' -54.8 NC_005946.1 + 92657 0.69 0.744018
Target:  5'- aCACCGAGaccGCCCAggccauagcCAGGUccuGGAGGGc -3'
miRNA:   3'- -GUGGUUC---CGGGU---------GUCCGauuUCUCCC- -5'
28483 3' -54.8 NC_005946.1 + 38313 0.69 0.744018
Target:  5'- cCACCcgcaagugggAAGGuCCCugAGGCUGGugagcuGGAGGa -3'
miRNA:   3'- -GUGG----------UUCC-GGGugUCCGAUU------UCUCCc -5'
28483 3' -54.8 NC_005946.1 + 3822 0.69 0.733896
Target:  5'- gCACCGucucgGGGUCCGuCAGGCUGGGGuccAGGc -3'
miRNA:   3'- -GUGGU-----UCCGGGU-GUCCGAUUUC---UCCc -5'
28483 3' -54.8 NC_005946.1 + 26196 0.69 0.732878
Target:  5'- cCGCUGAGGCCCGCAaucuguuGGUUGAAGGu-- -3'
miRNA:   3'- -GUGGUUCCGGGUGU-------CCGAUUUCUccc -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.