miRNA display CGI


Results 1 - 20 of 57 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
9037 3' -55.6 NC_002512.2 + 227471 0.66 0.970103
Target:  5'- gAGGCCgGg----GGCGGCCGGCcgCGa -3'
miRNA:   3'- gUCUGGgCacuaaCUGCCGGCUGa-GC- -5'
9037 3' -55.6 NC_002512.2 + 226375 0.67 0.949572
Target:  5'- gCGGGCUCG-GGUgGAgGGCCGACgaCGg -3'
miRNA:   3'- -GUCUGGGCaCUAaCUgCCGGCUGa-GC- -5'
9037 3' -55.6 NC_002512.2 + 226306 0.71 0.817086
Target:  5'- gAGACCCccgGGgccUGugGGCCGugGCUCGg -3'
miRNA:   3'- gUCUGGGca-CUa--ACugCCGGC--UGAGC- -5'
9037 3' -55.6 NC_002512.2 + 223210 0.66 0.972829
Target:  5'- aCGGcguCCCG-GAgcgcguccCGGCCGGCUCGg -3'
miRNA:   3'- -GUCu--GGGCaCUaacu----GCCGGCUGAGC- -5'
9037 3' -55.6 NC_002512.2 + 217765 0.68 0.92658
Target:  5'- cCGGGCCCGUccccgucgccgGggUcGCGGCCGGCUgGc -3'
miRNA:   3'- -GUCUGGGCA-----------CuaAcUGCCGGCUGAgC- -5'
9037 3' -55.6 NC_002512.2 + 217431 0.66 0.975371
Target:  5'- --uACCCGaGA-UGACGGCCGAUa-- -3'
miRNA:   3'- gucUGGGCaCUaACUGCCGGCUGagc -5'
9037 3' -55.6 NC_002512.2 + 216195 0.66 0.960761
Target:  5'- --cGCCCGUGAUcaccgccGCGGCCGucgcCUCGu -3'
miRNA:   3'- gucUGGGCACUAac-----UGCCGGCu---GAGC- -5'
9037 3' -55.6 NC_002512.2 + 196876 0.67 0.943691
Target:  5'- aCAGGcgccCCCGaaaucccccuuccGAUUaGACGGCCGugUCGa -3'
miRNA:   3'- -GUCU----GGGCa------------CUAA-CUGCCGGCugAGC- -5'
9037 3' -55.6 NC_002512.2 + 196413 0.69 0.871317
Target:  5'- gGGACgCGggGGgcGGCGGCCGGgUCGg -3'
miRNA:   3'- gUCUGgGCa-CUaaCUGCCGGCUgAGC- -5'
9037 3' -55.6 NC_002512.2 + 194928 0.66 0.967186
Target:  5'- cCGGACCCGguc---GCGGCCG-CUCc -3'
miRNA:   3'- -GUCUGGGCacuaacUGCCGGCuGAGc -5'
9037 3' -55.6 NC_002512.2 + 162250 0.69 0.878308
Target:  5'- gGGGCCCGUG---GACGaCCGugUCGc -3'
miRNA:   3'- gUCUGGGCACuaaCUGCcGGCugAGC- -5'
9037 3' -55.6 NC_002512.2 + 157145 0.7 0.841403
Target:  5'- gCGGGCCCGgGGcgGGCGGCgGGC-CGg -3'
miRNA:   3'- -GUCUGGGCaCUaaCUGCCGgCUGaGC- -5'
9037 3' -55.6 NC_002512.2 + 156469 0.71 0.791358
Target:  5'- gGGACUCGgg---GGCGGCgGGCUCGg -3'
miRNA:   3'- gUCUGGGCacuaaCUGCCGgCUGAGC- -5'
9037 3' -55.6 NC_002512.2 + 156412 0.66 0.960761
Target:  5'- cCAGACCCG-GAUcggcaugcUGuccGCGGCCgGGCUgGg -3'
miRNA:   3'- -GUCUGGGCaCUA--------AC---UGCCGG-CUGAgC- -5'
9037 3' -55.6 NC_002512.2 + 156293 0.7 0.849163
Target:  5'- -uGGCCCGUcg-UGAaguCGGCCGugUCGc -3'
miRNA:   3'- guCUGGGCAcuaACU---GCCGGCugAGC- -5'
9037 3' -55.6 NC_002512.2 + 150759 1.09 0.005239
Target:  5'- cCAGACCCGUGAUUGACGGCCGACUCGg -3'
miRNA:   3'- -GUCUGGGCACUAACUGCCGGCUGAGC- -5'
9037 3' -55.6 NC_002512.2 + 149240 0.66 0.975125
Target:  5'- aCGGACCCGgcgccgccgccgcgGACGGCCGGa-CGg -3'
miRNA:   3'- -GUCUGGGCacuaa---------CUGCCGGCUgaGC- -5'
9037 3' -55.6 NC_002512.2 + 142115 0.69 0.904186
Target:  5'- -cGACCCGUc---GGCGGCCGgaGCUCu -3'
miRNA:   3'- guCUGGGCAcuaaCUGCCGGC--UGAGc -5'
9037 3' -55.6 NC_002512.2 + 133813 0.68 0.92658
Target:  5'- -cGACCUGaccgaGACGGCCGAgUCGu -3'
miRNA:   3'- guCUGGGCacuaaCUGCCGGCUgAGC- -5'
9037 3' -55.6 NC_002512.2 + 133220 0.69 0.878308
Target:  5'- -cGACCuCGUaGAagaggUGACGGCCGGCcCGu -3'
miRNA:   3'- guCUGG-GCA-CUa----ACUGCCGGCUGaGC- -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.