miRNA display CGI


Results 1 - 20 of 69 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
14288 3' -54.3 NC_003521.1 + 499 0.72 0.830275
Target:  5'- -aGAACACGCGGUuuucAGGGGUGaCGcGCg- -3'
miRNA:   3'- agCUUGUGCGCCA----UCUCCAC-GC-UGac -5'
14288 3' -54.3 NC_003521.1 + 4446 0.75 0.682755
Target:  5'- cUCGAGCAUGCGG-AGcGaUGCGGCUGa -3'
miRNA:   3'- -AGCUUGUGCGCCaUCuCcACGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 5594 1.08 0.008123
Target:  5'- gUCGAACACGCGGUAGAGGUGCGACUGc -3'
miRNA:   3'- -AGCUUGUGCGCCAUCUCCACGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 15540 0.66 0.984456
Target:  5'- gCGAACGCGCuGGgaagAGGGGgcgcccaccuucacGCGACa- -3'
miRNA:   3'- aGCUUGUGCG-CCa---UCUCCa-------------CGCUGac -5'
14288 3' -54.3 NC_003521.1 + 18772 0.7 0.902465
Target:  5'- aCGAgaccacGCAgGCGGUGGAGGgccaGCG-CUGc -3'
miRNA:   3'- aGCU------UGUgCGCCAUCUCCa---CGCuGAC- -5'
14288 3' -54.3 NC_003521.1 + 19966 0.67 0.968908
Target:  5'- cCGGGCugGCGGUGaucgugaccuccguGGuGUGCGACa- -3'
miRNA:   3'- aGCUUGugCGCCAU--------------CUcCACGCUGac -5'
14288 3' -54.3 NC_003521.1 + 36744 0.66 0.987083
Target:  5'- -gGuGCACGUGGcccacgacguGuGGUGCGACUGc -3'
miRNA:   3'- agCuUGUGCGCCau--------CuCCACGCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 43128 0.67 0.966806
Target:  5'- gCGAGCGCuCGGcgcugggcgUGGAGGUGCacgcGCUGg -3'
miRNA:   3'- aGCUUGUGcGCC---------AUCUCCACGc---UGAC- -5'
14288 3' -54.3 NC_003521.1 + 45160 0.72 0.796248
Target:  5'- -gGAccGCACGCGuaaGUGGuGGUGCGACUc -3'
miRNA:   3'- agCU--UGUGCGC---CAUCuCCACGCUGAc -5'
14288 3' -54.3 NC_003521.1 + 53162 0.66 0.987083
Target:  5'- gUCGGGgACgGCGGcgaGGAGGUcgGCGACg- -3'
miRNA:   3'- -AGCUUgUG-CGCCa--UCUCCA--CGCUGac -5'
14288 3' -54.3 NC_003521.1 + 58998 0.68 0.960252
Target:  5'- gUCG---GCGUGGUAGAGGUaGCGAa-- -3'
miRNA:   3'- -AGCuugUGCGCCAUCUCCA-CGCUgac -5'
14288 3' -54.3 NC_003521.1 + 62293 0.66 0.979781
Target:  5'- aCGAcgGCACGCGGUAcGAGaUGUGcaucaugaaGCUGg -3'
miRNA:   3'- aGCU--UGUGCGCCAU-CUCcACGC---------UGAC- -5'
14288 3' -54.3 NC_003521.1 + 69091 0.66 0.987083
Target:  5'- aUGGugGCGUGGUGGuacuuGGUGUGcACg- -3'
miRNA:   3'- aGCUugUGCGCCAUCu----CCACGC-UGac -5'
14288 3' -54.3 NC_003521.1 + 77083 0.68 0.944586
Target:  5'- gUCGAgcaGCAUGCGGcgcauGGGGUcGCGGCa- -3'
miRNA:   3'- -AGCU---UGUGCGCCau---CUCCA-CGCUGac -5'
14288 3' -54.3 NC_003521.1 + 77152 0.67 0.975145
Target:  5'- cUUGGAUuCGUGGUGGuGGUGauGCUGa -3'
miRNA:   3'- -AGCUUGuGCGCCAUCuCCACgcUGAC- -5'
14288 3' -54.3 NC_003521.1 + 78593 0.66 0.979781
Target:  5'- gUGAGCGuCGCGGgaagcggAGAGGcacCGACUGc -3'
miRNA:   3'- aGCUUGU-GCGCCa------UCUCCac-GCUGAC- -5'
14288 3' -54.3 NC_003521.1 + 81886 0.69 0.914358
Target:  5'- gUCGAcCACGUcaccGGUGGAGGUGgCGAa-- -3'
miRNA:   3'- -AGCUuGUGCG----CCAUCUCCAC-GCUgac -5'
14288 3' -54.3 NC_003521.1 + 85872 0.7 0.896183
Target:  5'- -aGGGCAccaggcgcuCGCGGUAGAGGcGCGugUc -3'
miRNA:   3'- agCUUGU---------GCGCCAUCUCCaCGCugAc -5'
14288 3' -54.3 NC_003521.1 + 87584 0.66 0.984456
Target:  5'- gCGGgugcGCACGCGGacgaaggccguguugUAGcAGGUGUGGCa- -3'
miRNA:   3'- aGCU----UGUGCGCC---------------AUC-UCCACGCUGac -5'
14288 3' -54.3 NC_003521.1 + 88048 0.7 0.882964
Target:  5'- gUUGAGCGCGCGGauGAGGUcgcgguggucgGCGGCg- -3'
miRNA:   3'- -AGCUUGUGCGCCauCUCCA-----------CGCUGac -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.