miRNA display CGI


Results 1 - 20 of 21 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
17276 5' -48.3 NC_004367.1 + 7730 0.66 0.998601
Target:  5'- -cGCCGCGGgcguggagUGGAACACGGAGgUAg- -3'
miRNA:   3'- guCGGUGCC--------AUCUUGUGUUUUgGUac -5'
17276 5' -48.3 NC_004367.1 + 112100 0.72 0.956535
Target:  5'- uUAGCCaAUGGU-GAACACcuagAAAACCGUGu -3'
miRNA:   3'- -GUCGG-UGCCAuCUUGUG----UUUUGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 37780 0.71 0.959296
Target:  5'- gAGCCGCGGUgauauaucuggccaAGGAUGCcucaaAAGGCCGUGa -3'
miRNA:   3'- gUCGGUGCCA--------------UCUUGUG-----UUUUGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 2790 0.68 0.994408
Target:  5'- gGGgCGCGGUAGAgaACACAAAuuAUCAc- -3'
miRNA:   3'- gUCgGUGCCAUCU--UGUGUUU--UGGUac -5'
17276 5' -48.3 NC_004367.1 + 26468 0.68 0.995215
Target:  5'- gGGUCACaugGGGAC-CAAAACCGUGg -3'
miRNA:   3'- gUCGGUGccaUCUUGuGUUUUGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 69528 0.68 0.995925
Target:  5'- aAGCCcuucgGCGGUGGucguAUACuu-GCCAUGg -3'
miRNA:   3'- gUCGG-----UGCCAUCu---UGUGuuuUGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 14673 0.67 0.998306
Target:  5'- aUAGCCgaaACGGUGacccuacAAgGCAGAACCAUGc -3'
miRNA:   3'- -GUCGG---UGCCAUc------UUgUGUUUUGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 37921 1.02 0.038492
Target:  5'- -cGCCACGGUAGAACACAAAACCAUGc -3'
miRNA:   3'- guCGGUGCCAUCUUGUGUUUUGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 672 0.73 0.907562
Target:  5'- uUAGCCACGGUGGucCACucagucuccgccggGGAGCCAUc -3'
miRNA:   3'- -GUCGGUGCCAUCuuGUG--------------UUUUGGUAc -5'
17276 5' -48.3 NC_004367.1 + 91811 0.7 0.978641
Target:  5'- aGGCCAUGG-AGAACauacacgGCGAGACCuAUGc -3'
miRNA:   3'- gUCGGUGCCaUCUUG-------UGUUUUGG-UAC- -5'
17276 5' -48.3 NC_004367.1 + 62675 0.7 0.980294
Target:  5'- cCAGCCAUGcGUAGAACucuguauguccauUAGAGCCAg- -3'
miRNA:   3'- -GUCGGUGC-CAUCUUGu------------GUUUUGGUac -5'
17276 5' -48.3 NC_004367.1 + 63214 0.69 0.985241
Target:  5'- cUAGCguCGGUGGAGCuggugACAGAuguCCAUGc -3'
miRNA:   3'- -GUCGguGCCAUCUUG-----UGUUUu--GGUAC- -5'
17276 5' -48.3 NC_004367.1 + 70019 0.66 0.99924
Target:  5'- gUAGCCGUGGgAGAgGCGCu-AGCCGUGg -3'
miRNA:   3'- -GUCGGUGCCaUCU-UGUGuuUUGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 61251 0.67 0.997959
Target:  5'- uGGCCACuGUcc-ACACAGAACCAc- -3'
miRNA:   3'- gUCGGUGcCAucuUGUGUUUUGGUac -5'
17276 5' -48.3 NC_004367.1 + 111360 0.67 0.997724
Target:  5'- aCGGCUaacagGCGGUGGGGCAUGAAuaagguguccagacuGCCAg- -3'
miRNA:   3'- -GUCGG-----UGCCAUCUUGUGUUU---------------UGGUac -5'
17276 5' -48.3 NC_004367.1 + 93217 0.67 0.997555
Target:  5'- uGGCCuuAUGGgccccGAACGCAAGagcgGCCAUGa -3'
miRNA:   3'- gUCGG--UGCCau---CUUGUGUUU----UGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 14829 0.67 0.997086
Target:  5'- uCGGCUAUGGUGaGGCAUggGaacagGCCGUGu -3'
miRNA:   3'- -GUCGGUGCCAUcUUGUGuuU-----UGGUAC- -5'
17276 5' -48.3 NC_004367.1 + 27513 0.68 0.995925
Target:  5'- aAGCCuuugccucuaACGGUAGAACACcuu-CCAg- -3'
miRNA:   3'- gUCGG----------UGCCAUCUUGUGuuuuGGUac -5'
17276 5' -48.3 NC_004367.1 + 29953 0.69 0.988587
Target:  5'- uGGCC-CGaGUGGAugGCGGAAUCAa- -3'
miRNA:   3'- gUCGGuGC-CAUCUugUGUUUUGGUac -5'
17276 5' -48.3 NC_004367.1 + 27629 0.69 0.985241
Target:  5'- uGGCaCACGGUGGAACAaucuAugUAUGc -3'
miRNA:   3'- gUCG-GUGCCAUCUUGUguu-UugGUAC- -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.