miRNA display CGI


Results 1 - 20 of 41 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
23648 3' -53.8 NC_005261.1 + 62933 0.66 0.952009
Target:  5'- aCCGGCAGGcagccCCGCAccGGCgagGCGUc- -3'
miRNA:   3'- -GGUCGUCCa----GGUGU--UCGacaCGCAac -5'
23648 3' -53.8 NC_005261.1 + 129715 0.66 0.952009
Target:  5'- -aGGCAGGcCCGCcGGCUGcaGCGg-- -3'
miRNA:   3'- ggUCGUCCaGGUGuUCGACa-CGCaac -5'
23648 3' -53.8 NC_005261.1 + 109873 0.66 0.947724
Target:  5'- gCAGCGGGgcCCGCGGGCgg-GCGc-- -3'
miRNA:   3'- gGUCGUCCa-GGUGUUCGacaCGCaac -5'
23648 3' -53.8 NC_005261.1 + 89265 0.66 0.943193
Target:  5'- gUguGCGGG-CgACGGGCUG-GCGUUc -3'
miRNA:   3'- -GguCGUCCaGgUGUUCGACaCGCAAc -5'
23648 3' -53.8 NC_005261.1 + 2209 0.66 0.938414
Target:  5'- cCCAGCg---CCGCGAGCagGUGCGa-- -3'
miRNA:   3'- -GGUCGuccaGGUGUUCGa-CACGCaac -5'
23648 3' -53.8 NC_005261.1 + 50829 0.66 0.938414
Target:  5'- gCGGCuuGGcgCCGCGAGCUG-GCGccugUGg -3'
miRNA:   3'- gGUCGu-CCa-GGUGUUCGACaCGCa---AC- -5'
23648 3' -53.8 NC_005261.1 + 123506 0.66 0.933384
Target:  5'- aCCAGCGGcagugccgcGUCCgcuaGCAAGCUGUaccgcgcgaGCGUg- -3'
miRNA:   3'- -GGUCGUC---------CAGG----UGUUCGACA---------CGCAac -5'
23648 3' -53.8 NC_005261.1 + 85943 0.66 0.933384
Target:  5'- gCGGcCAGGgcgCCGCGgaAGCUG-GCGUg- -3'
miRNA:   3'- gGUC-GUCCa--GGUGU--UCGACaCGCAac -5'
23648 3' -53.8 NC_005261.1 + 98153 0.67 0.928103
Target:  5'- gCGGCaAGG-CCGCGGGCggcggGUGUGUc- -3'
miRNA:   3'- gGUCG-UCCaGGUGUUCGa----CACGCAac -5'
23648 3' -53.8 NC_005261.1 + 19052 0.67 0.928103
Target:  5'- gCCAgGCAGGggUACGGGCUGcGCGg-- -3'
miRNA:   3'- -GGU-CGUCCagGUGUUCGACaCGCaac -5'
23648 3' -53.8 NC_005261.1 + 63351 0.67 0.928103
Target:  5'- cCCA-CGGGUUCACGguGGCgcgGUGCGg-- -3'
miRNA:   3'- -GGUcGUCCAGGUGU--UCGa--CACGCaac -5'
23648 3' -53.8 NC_005261.1 + 87679 0.67 0.923134
Target:  5'- gCCAGCGGuGagucgcagcuccgcgCCGCAAGCaGUGCGa-- -3'
miRNA:   3'- -GGUCGUC-Ca--------------GGUGUUCGaCACGCaac -5'
23648 3' -53.8 NC_005261.1 + 129381 0.67 0.92257
Target:  5'- gCGGCuucGGGUCCAcCGGGCUGUGa---- -3'
miRNA:   3'- gGUCG---UCCAGGU-GUUCGACACgcaac -5'
23648 3' -53.8 NC_005261.1 + 117466 0.67 0.916785
Target:  5'- gCGGCAGGUCgGCGGcgacgcGCUGcUGCGc-- -3'
miRNA:   3'- gGUCGUCCAGgUGUU------CGAC-ACGCaac -5'
23648 3' -53.8 NC_005261.1 + 98911 0.67 0.916785
Target:  5'- aCAGCGGGUCgGCGGGgucgGcUGCGggGg -3'
miRNA:   3'- gGUCGUCCAGgUGUUCga--C-ACGCaaC- -5'
23648 3' -53.8 NC_005261.1 + 78236 0.67 0.916785
Target:  5'- cUCAGCAG--CCGCAGGC-GUGCGa-- -3'
miRNA:   3'- -GGUCGUCcaGGUGUUCGaCACGCaac -5'
23648 3' -53.8 NC_005261.1 + 104805 0.67 0.910748
Target:  5'- uCCAGCGGGUCCcGCuccgcAGCg--GCGUc- -3'
miRNA:   3'- -GGUCGUCCAGG-UGu----UCGacaCGCAac -5'
23648 3' -53.8 NC_005261.1 + 11742 0.67 0.910748
Target:  5'- uCCAGCAGa--CGCGAGC-GUGCGa-- -3'
miRNA:   3'- -GGUCGUCcagGUGUUCGaCACGCaac -5'
23648 3' -53.8 NC_005261.1 + 14785 0.67 0.910131
Target:  5'- cCCGcGCAGGUgccgcucCCGCAGGCUGcGCa--- -3'
miRNA:   3'- -GGU-CGUCCA-------GGUGUUCGACaCGcaac -5'
23648 3' -53.8 NC_005261.1 + 50300 0.67 0.903821
Target:  5'- cCCAGCAGGUCCucguccacucgguGCAAGCUuuccaccUGCa--- -3'
miRNA:   3'- -GGUCGUCCAGG-------------UGUUCGAc------ACGcaac -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.