miRNA display CGI


Results 1 - 20 of 27 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
30455 3' -58 NC_006548.1 + 35281 0.66 0.524045
Target:  5'- -gCGGCCUgGUaccuGCGuUCCGCGGGGu -3'
miRNA:   3'- ggGCCGGAgCAgc--CGCuAGGCGUUUC- -5'
30455 3' -58 NC_006548.1 + 7102 0.66 0.524045
Target:  5'- aCCagGGCCUCGUCacgccccaGGCGGcUCUGCcccGAGu -3'
miRNA:   3'- -GGg-CCGGAGCAG--------CCGCU-AGGCGu--UUC- -5'
30455 3' -58 NC_006548.1 + 26961 0.66 0.524044
Target:  5'- aCCCuGCUgcaaGUCGGCGcgCagaCGCAGAGc -3'
miRNA:   3'- -GGGcCGGag--CAGCCGCuaG---GCGUUUC- -5'
30455 3' -58 NC_006548.1 + 27728 0.66 0.503186
Target:  5'- uCCC-GCCUgGU-GGCGG-CCGCGAAa -3'
miRNA:   3'- -GGGcCGGAgCAgCCGCUaGGCGUUUc -5'
30455 3' -58 NC_006548.1 + 8414 0.66 0.503186
Target:  5'- gCCGGCCUCGaUGaG-GGUCUGCAu-- -3'
miRNA:   3'- gGGCCGGAGCaGC-CgCUAGGCGUuuc -5'
30455 3' -58 NC_006548.1 + 21764 0.66 0.472603
Target:  5'- gCCGGUUUCGUCGGUGG--CGCu--- -3'
miRNA:   3'- gGGCCGGAGCAGCCGCUagGCGuuuc -5'
30455 3' -58 NC_006548.1 + 36829 0.66 0.469597
Target:  5'- gCCUGGCCggGUgcugguguguggugUGGCGuAUCCGaCGAAGa -3'
miRNA:   3'- -GGGCCGGagCA--------------GCCGC-UAGGC-GUUUC- -5'
30455 3' -58 NC_006548.1 + 12107 0.67 0.462619
Target:  5'- gCCGGCgguuucuuCUCGUCGGCcaaggccgaugaGAUcCCGCGGGc -3'
miRNA:   3'- gGGCCG--------GAGCAGCCG------------CUA-GGCGUUUc -5'
30455 3' -58 NC_006548.1 + 20833 0.67 0.452745
Target:  5'- gCCGGCCUUGaccaggccuUCGGCGAacUCgGUGAc- -3'
miRNA:   3'- gGGCCGGAGC---------AGCCGCU--AGgCGUUuc -5'
30455 3' -58 NC_006548.1 + 33278 0.67 0.442988
Target:  5'- -aCGGCUUcCGUUGGCaGAccuccggCCGCGAGGa -3'
miRNA:   3'- ggGCCGGA-GCAGCCG-CUa------GGCGUUUC- -5'
30455 3' -58 NC_006548.1 + 36695 0.67 0.43335
Target:  5'- gCCGGCCUCaugCGGCGcuggcaCCGUAucGa -3'
miRNA:   3'- gGGCCGGAGca-GCCGCua----GGCGUuuC- -5'
30455 3' -58 NC_006548.1 + 23571 0.67 0.427626
Target:  5'- aUCCGGCC-CGaggcugaacuugcccUCGGCGAUgagCUGCAGGa -3'
miRNA:   3'- -GGGCCGGaGC---------------AGCCGCUA---GGCGUUUc -5'
30455 3' -58 NC_006548.1 + 24575 0.67 0.423836
Target:  5'- aCCGGugaaguCCUCGagGGCGAUCUG-AAAGc -3'
miRNA:   3'- gGGCC------GGAGCagCCGCUAGGCgUUUC- -5'
30455 3' -58 NC_006548.1 + 17073 0.67 0.423835
Target:  5'- --aGGUCUUguaGUCGGCGGUCC-CGGAGc -3'
miRNA:   3'- gggCCGGAG---CAGCCGCUAGGcGUUUC- -5'
30455 3' -58 NC_006548.1 + 14554 0.67 0.414447
Target:  5'- aCCCGGCUgaucgCGUCggacugcuGGCGucagCgGCAAAGa -3'
miRNA:   3'- -GGGCCGGa----GCAG--------CCGCua--GgCGUUUC- -5'
30455 3' -58 NC_006548.1 + 28546 0.68 0.378206
Target:  5'- gCCGGCCaggUCG-CGGCGcuacCCGCGAc- -3'
miRNA:   3'- gGGCCGG---AGCaGCCGCua--GGCGUUuc -5'
30455 3' -58 NC_006548.1 + 20928 0.68 0.360901
Target:  5'- aCCUGGCCgUCGcccUCGGCGAaCUcCAGGGg -3'
miRNA:   3'- -GGGCCGG-AGC---AGCCGCUaGGcGUUUC- -5'
30455 3' -58 NC_006548.1 + 17198 0.69 0.352458
Target:  5'- gCCCGGCC-CGUUGGCuGA-CCGaguGGa -3'
miRNA:   3'- -GGGCCGGaGCAGCCG-CUaGGCguuUC- -5'
30455 3' -58 NC_006548.1 + 2057 0.69 0.349953
Target:  5'- gCCUGGaUCgCGUCGGCGAUguugucgucgacgcCCGCGAAc -3'
miRNA:   3'- -GGGCC-GGaGCAGCCGCUA--------------GGCGUUUc -5'
30455 3' -58 NC_006548.1 + 13176 0.69 0.3201
Target:  5'- cCUCGGCCUgGUUGGCGcg-CGCGAc- -3'
miRNA:   3'- -GGGCCGGAgCAGCCGCuagGCGUUuc -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.