miRNA display CGI


Results 1 - 20 of 30 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
25029 5' -52.9 NC_005336.1 + 123731 0.66 0.979624
Target:  5'- -cGGGCGAGUG-CGGGcaUCGugcCGAGCu -3'
miRNA:   3'- cuCUUGCUCACuGCUC--AGCu--GCUCGc -5'
25029 5' -52.9 NC_005336.1 + 132581 0.66 0.979624
Target:  5'- -cGAccGCGAGUGGCcggacuGUCGcGCGAGCu -3'
miRNA:   3'- cuCU--UGCUCACUGcu----CAGC-UGCUCGc -5'
25029 5' -52.9 NC_005336.1 + 55143 0.66 0.978248
Target:  5'- aGAGAGCGccacgucgcugacUGAgGAGUCGGCG-GCGc -3'
miRNA:   3'- -CUCUUGCuc-----------ACUgCUCAGCUGCuCGC- -5'
25029 5' -52.9 NC_005336.1 + 10598 0.66 0.977293
Target:  5'- -uGAGCGAGgggagGACGAccgCGGCGGcGCGc -3'
miRNA:   3'- cuCUUGCUCa----CUGCUca-GCUGCU-CGC- -5'
25029 5' -52.9 NC_005336.1 + 77970 0.66 0.977049
Target:  5'- uGGGGCGAGgggGugcgcuuCGAGUCGccgcccuGCGAGCa -3'
miRNA:   3'- cUCUUGCUCa--Cu------GCUCAGC-------UGCUCGc -5'
25029 5' -52.9 NC_005336.1 + 101654 0.66 0.974771
Target:  5'- cGAGGA-GGGccGCGAGUgCGugGAGCa -3'
miRNA:   3'- -CUCUUgCUCacUGCUCA-GCugCUCGc -5'
25029 5' -52.9 NC_005336.1 + 22020 0.66 0.97205
Target:  5'- aAGAGCGGcUGG-GGGUCGuCGAGCa -3'
miRNA:   3'- cUCUUGCUcACUgCUCAGCuGCUCGc -5'
25029 5' -52.9 NC_005336.1 + 7487 0.66 0.97205
Target:  5'- -cGGGCGcGcGGCG-GUCGcACGAGCGg -3'
miRNA:   3'- cuCUUGCuCaCUGCuCAGC-UGCUCGC- -5'
25029 5' -52.9 NC_005336.1 + 137226 0.66 0.969125
Target:  5'- aGAGGACGAGaGaacggauaGCGAGUCGAC-AGUc -3'
miRNA:   3'- -CUCUUGCUCaC--------UGCUCAGCUGcUCGc -5'
25029 5' -52.9 NC_005336.1 + 137226 0.66 0.969125
Target:  5'- aGAGGACGAGaGaacggauaGCGAGUCGAC-AGUc -3'
miRNA:   3'- -CUCUUGCUCaC--------UGCUCAGCUGcUCGc -5'
25029 5' -52.9 NC_005336.1 + 84609 0.67 0.967269
Target:  5'- gGAGGACGAG-GACGAGgaggaagagucugcCGA-GGGCGc -3'
miRNA:   3'- -CUCUUGCUCaCUGCUCa-------------GCUgCUCGC- -5'
25029 5' -52.9 NC_005336.1 + 83772 0.67 0.962633
Target:  5'- uAGAACcGGUGACG---CGGCGGGCGc -3'
miRNA:   3'- cUCUUGcUCACUGCucaGCUGCUCGC- -5'
25029 5' -52.9 NC_005336.1 + 58143 0.68 0.946927
Target:  5'- -uGAACGAGUGGCugcgcGG-CGACGGcGCGg -3'
miRNA:   3'- cuCUUGCUCACUGc----UCaGCUGCU-CGC- -5'
25029 5' -52.9 NC_005336.1 + 99287 0.68 0.946927
Target:  5'- ---cGCGAGUgGACG-GUCGACGAcGCc -3'
miRNA:   3'- cucuUGCUCA-CUGCuCAGCUGCU-CGc -5'
25029 5' -52.9 NC_005336.1 + 60247 0.68 0.946927
Target:  5'- aGGGAGCaGGUG-CGGGUUGAggcuUGGGCGg -3'
miRNA:   3'- -CUCUUGcUCACuGCUCAGCU----GCUCGC- -5'
25029 5' -52.9 NC_005336.1 + 105360 0.68 0.942409
Target:  5'- cGAGGGCGAGcaGACGuguGUgCGcAUGAGCGa -3'
miRNA:   3'- -CUCUUGCUCa-CUGCu--CA-GC-UGCUCGC- -5'
25029 5' -52.9 NC_005336.1 + 85193 0.68 0.937648
Target:  5'- uGAGcGCGGccacguccgccGUGuACGGGUCGcGCGAGCGc -3'
miRNA:   3'- -CUCuUGCU-----------CAC-UGCUCAGC-UGCUCGC- -5'
25029 5' -52.9 NC_005336.1 + 126968 0.68 0.932643
Target:  5'- gGAGAGCGAGgaGCGuccGGaCGugGAGCGc -3'
miRNA:   3'- -CUCUUGCUCacUGC---UCaGCugCUCGC- -5'
25029 5' -52.9 NC_005336.1 + 128112 0.68 0.932643
Target:  5'- aAGGACGcG-GACGAGcugcgcgCGGCGGGCGu -3'
miRNA:   3'- cUCUUGCuCaCUGCUCa------GCUGCUCGC- -5'
25029 5' -52.9 NC_005336.1 + 10117 0.68 0.927392
Target:  5'- -uGAACGuGUGGCugcgcccagGAGUCGGCGcucgcGGCGg -3'
miRNA:   3'- cuCUUGCuCACUG---------CUCAGCUGC-----UCGC- -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.