miRNA display CGI


Results 1 - 20 of 21 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
28383 5' -59.1 NC_005946.1 + 20671 0.66 0.686748
Target:  5'- gCUGUACaagauuugcGCCGCCGUAAACUCgGUg -3'
miRNA:   3'- gGACGUGc--------CGGCGGCGUUUGGGgUAg -5'
28383 5' -59.1 NC_005946.1 + 41854 0.66 0.676571
Target:  5'- cCCUGCGgccccUGGUCGCC-CAuggGACCCCu-- -3'
miRNA:   3'- -GGACGU-----GCCGGCGGcGU---UUGGGGuag -5'
28383 5' -59.1 NC_005946.1 + 50967 0.66 0.666356
Target:  5'- cCCUGCuACGGCUcCCGC---CCCC-UCu -3'
miRNA:   3'- -GGACG-UGCCGGcGGCGuuuGGGGuAG- -5'
28383 5' -59.1 NC_005946.1 + 68096 0.66 0.666356
Target:  5'- uCCUugGC-CGGCCucucuGCCGCcauUCCCGUCa -3'
miRNA:   3'- -GGA--CGuGCCGG-----CGGCGuuuGGGGUAG- -5'
28383 5' -59.1 NC_005946.1 + 9657 0.66 0.662262
Target:  5'- cCCUGUcccUGGCC-CCGCAcagggccacagacACCCCGUCc -3'
miRNA:   3'- -GGACGu--GCCGGcGGCGUu------------UGGGGUAG- -5'
28383 5' -59.1 NC_005946.1 + 49898 0.67 0.656114
Target:  5'- --gGcCACGGCa-CCGCAAgGCCCCGUUc -3'
miRNA:   3'- ggaC-GUGCCGgcGGCGUU-UGGGGUAG- -5'
28383 5' -59.1 NC_005946.1 + 63269 0.67 0.63558
Target:  5'- --gGCgGCGGCCGCCGCAAAggUCUgAUa -3'
miRNA:   3'- ggaCG-UGCCGGCGGCGUUU--GGGgUAg -5'
28383 5' -59.1 NC_005946.1 + 67620 0.67 0.63558
Target:  5'- aCCUGCACGGCUcCCuu---CCCCAg- -3'
miRNA:   3'- -GGACGUGCCGGcGGcguuuGGGGUag -5'
28383 5' -59.1 NC_005946.1 + 21749 0.67 0.615035
Target:  5'- cCCUGUuugucAUGGCCcugagCGCGAGCCCCGa- -3'
miRNA:   3'- -GGACG-----UGCCGGcg---GCGUUUGGGGUag -5'
28383 5' -59.1 NC_005946.1 + 23769 0.67 0.615035
Target:  5'- aUCUGCGCgagGGCCGaCGC-GGCCUgAUCg -3'
miRNA:   3'- -GGACGUG---CCGGCgGCGuUUGGGgUAG- -5'
28383 5' -59.1 NC_005946.1 + 30461 0.68 0.574159
Target:  5'- gCCaGCcCGGUCGCUGCGcucuccACuCCCAUCg -3'
miRNA:   3'- -GGaCGuGCCGGCGGCGUu-----UG-GGGUAG- -5'
28383 5' -59.1 NC_005946.1 + 102300 0.68 0.564026
Target:  5'- gCCgUGCAgGGCC-CCGCAcGCCagggCGUCa -3'
miRNA:   3'- -GG-ACGUgCCGGcGGCGUuUGGg---GUAG- -5'
28383 5' -59.1 NC_005946.1 + 35466 0.69 0.504445
Target:  5'- ---uCACGGCCGCUGUGGACUCUggGUCa -3'
miRNA:   3'- ggacGUGCCGGCGGCGUUUGGGG--UAG- -5'
28383 5' -59.1 NC_005946.1 + 98626 0.69 0.494768
Target:  5'- uCCUGCgGCGGCCG-UGguGGCCUCAg- -3'
miRNA:   3'- -GGACG-UGCCGGCgGCguUUGGGGUag -5'
28383 5' -59.1 NC_005946.1 + 72691 0.7 0.438638
Target:  5'- uCCUGUGCGGCgUGaCgGguGACCCCGUg -3'
miRNA:   3'- -GGACGUGCCG-GC-GgCguUUGGGGUAg -5'
28383 5' -59.1 NC_005946.1 + 10017 0.72 0.346001
Target:  5'- uCUUGCGuuCGGCguaGCCGguGACCCCAgUCa -3'
miRNA:   3'- -GGACGU--GCCGg--CGGCguUUGGGGU-AG- -5'
28383 5' -59.1 NC_005946.1 + 20879 0.73 0.308781
Target:  5'- cCCUGgaGCaGGCCGCCGCGguGGCCCUg-- -3'
miRNA:   3'- -GGACg-UG-CCGGCGGCGU--UUGGGGuag -5'
28383 5' -59.1 NC_005946.1 + 11093 0.73 0.294772
Target:  5'- gCCU-CuuuuUGGCCGCCGCcAGCCCCAg- -3'
miRNA:   3'- -GGAcGu---GCCGGCGGCGuUUGGGGUag -5'
28383 5' -59.1 NC_005946.1 + 86496 0.75 0.226515
Target:  5'- uCCaGgACGGCUGCCGUguGCCUCAUCu -3'
miRNA:   3'- -GGaCgUGCCGGCGGCGuuUGGGGUAG- -5'
28383 5' -59.1 NC_005946.1 + 35948 0.82 0.085027
Target:  5'- cCUUGcCACGGCCGCCGCcaGGGCCCUcgCa -3'
miRNA:   3'- -GGAC-GUGCCGGCGGCG--UUUGGGGuaG- -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.