miRNA display CGI


Results 1 - 20 of 36 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
17001 3' -55.8 NC_004333.2 + 32259 0.66 0.672921
Target:  5'- uGGCgGCGaUGGCAcCGUgGGCGGUCGc -3'
miRNA:   3'- cCCGaUGUcGCCGU-GCAaCUGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 16566 0.66 0.672921
Target:  5'- cGGCcACAGCGGC-CGa-GACGG-CGc -3'
miRNA:   3'- cCCGaUGUCGCCGuGCaaCUGCCaGU- -5'
17001 3' -55.8 NC_004333.2 + 13364 0.66 0.672921
Target:  5'- cGGGCgcgGCacgAGCGGCGUGUccaUGAucUGGUCGu -3'
miRNA:   3'- -CCCGa--UG---UCGCCGUGCA---ACU--GCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 14118 0.66 0.661924
Target:  5'- cGGCUGCGGCGaaCACGggGAgUGGUa- -3'
miRNA:   3'- cCCGAUGUCGCc-GUGCaaCU-GCCAgu -5'
17001 3' -55.8 NC_004333.2 + 21425 0.66 0.661924
Target:  5'- uGGGCaaaUugGGCGGCGCaGgacgcgGACGGa-- -3'
miRNA:   3'- -CCCG---AugUCGCCGUG-Caa----CUGCCagu -5'
17001 3' -55.8 NC_004333.2 + 15282 0.66 0.650898
Target:  5'- -uGCUGCGGCGGC------GCGGUCAg -3'
miRNA:   3'- ccCGAUGUCGCCGugcaacUGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 33450 0.66 0.650898
Target:  5'- cGGCagcauugGCAGCGGCGCGccgGGCGaUCc -3'
miRNA:   3'- cCCGa------UGUCGCCGUGCaa-CUGCcAGu -5'
17001 3' -55.8 NC_004333.2 + 3876 0.66 0.650898
Target:  5'- cGGGC-GCAGCGuaACGggauUGGUCAu -3'
miRNA:   3'- -CCCGaUGUCGCcgUGCaacuGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 31005 0.66 0.639855
Target:  5'- gGGGCUcGCAGCGGCcuUGUcGACGcG-CAc -3'
miRNA:   3'- -CCCGA-UGUCGCCGu-GCAaCUGC-CaGU- -5'
17001 3' -55.8 NC_004333.2 + 9561 0.66 0.628805
Target:  5'- cGGGCaccacggGCAGCGGCGCGcccGGCuGUa- -3'
miRNA:   3'- -CCCGa------UGUCGCCGUGCaa-CUGcCAgu -5'
17001 3' -55.8 NC_004333.2 + 9225 0.66 0.628805
Target:  5'- cGGGCaugaAGCGGCGa-UUGcCGGUCGc -3'
miRNA:   3'- -CCCGaug-UCGCCGUgcAACuGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 44967 0.66 0.628805
Target:  5'- gGGGCg--GGCGGCGCGccgGGcCGGcUCAc -3'
miRNA:   3'- -CCCGaugUCGCCGUGCaa-CU-GCC-AGU- -5'
17001 3' -55.8 NC_004333.2 + 40471 0.66 0.628805
Target:  5'- gGGGCUGCAGCGGgcUACGguagugUGACc---- -3'
miRNA:   3'- -CCCGAUGUCGCC--GUGCa-----ACUGccagu -5'
17001 3' -55.8 NC_004333.2 + 33728 0.67 0.600113
Target:  5'- gGGGCaagACAGCGGacgaGCGUguguggcugaucgacUGGCGGcgCGa -3'
miRNA:   3'- -CCCGa--UGUCGCCg---UGCA---------------ACUGCCa-GU- -5'
17001 3' -55.8 NC_004333.2 + 11915 0.67 0.594612
Target:  5'- cGGCaugcGCAGCGGCGCGcgcgccaUUacgcgcgcuccaGGCGGUCGa -3'
miRNA:   3'- cCCGa---UGUCGCCGUGC-------AA------------CUGCCAGU- -5'
17001 3' -55.8 NC_004333.2 + 24809 0.67 0.58473
Target:  5'- cGGaCUGacgGGCGGCACGgUGACGcUCAc -3'
miRNA:   3'- cCC-GAUg--UCGCCGUGCaACUGCcAGU- -5'
17001 3' -55.8 NC_004333.2 + 23113 0.67 0.573789
Target:  5'- cGGCUgaACGGCGGCACugauGUUGcgcGCGGa-- -3'
miRNA:   3'- cCCGA--UGUCGCCGUG----CAAC---UGCCagu -5'
17001 3' -55.8 NC_004333.2 + 22176 0.67 0.573789
Target:  5'- -cGCcgGCGGCGGC-CGgcGGCGGUUc -3'
miRNA:   3'- ccCGa-UGUCGCCGuGCaaCUGCCAGu -5'
17001 3' -55.8 NC_004333.2 + 11334 0.67 0.573789
Target:  5'- uGGGUUgAUAGCGGC-CGgcGAUGGcCGu -3'
miRNA:   3'- -CCCGA-UGUCGCCGuGCaaCUGCCaGU- -5'
17001 3' -55.8 NC_004333.2 + 24545 0.67 0.562896
Target:  5'- aGGCgaggACuucaaCGGCGCGUUGAaccaGGUCGc -3'
miRNA:   3'- cCCGa---UGuc---GCCGUGCAACUg---CCAGU- -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.