miRNA display CGI


Results 1 - 20 of 70 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
19623 5' -50.9 NC_004686.1 + 55980 0.67 0.881013
Target:  5'- cCAACCCCucacugGUCGACcaCAGCGAcaACGg -3'
miRNA:   3'- uGUUGGGG------UAGCUGcaGUUGCU--UGCg -5'
19623 5' -50.9 NC_004686.1 + 8216 0.69 0.80181
Target:  5'- -gAACCCgGcCGGCGUCAACGAguACa- -3'
miRNA:   3'- ugUUGGGgUaGCUGCAGUUGCU--UGcg -5'
19623 5' -50.9 NC_004686.1 + 31289 0.69 0.809563
Target:  5'- cACGugCUCGaauUCGGCGUCuuuuucaggguCGAACGCu -3'
miRNA:   3'- -UGUugGGGU---AGCUGCAGuu---------GCUUGCG- -5'
19623 5' -50.9 NC_004686.1 + 16603 0.69 0.830232
Target:  5'- gACAGCCUguUCGAUccguuGUCGugGGugGUc -3'
miRNA:   3'- -UGUUGGGguAGCUG-----CAGUugCUugCG- -5'
19623 5' -50.9 NC_004686.1 + 52294 0.69 0.830232
Target:  5'- uCGGCCCCcUCGGCu---GCGAAUGCc -3'
miRNA:   3'- uGUUGGGGuAGCUGcaguUGCUUGCG- -5'
19623 5' -50.9 NC_004686.1 + 49068 0.68 0.839288
Target:  5'- -gGACgCCC-UgGugGUCAGCGAgggagaGCGCg -3'
miRNA:   3'- ugUUG-GGGuAgCugCAGUUGCU------UGCG- -5'
19623 5' -50.9 NC_004686.1 + 32324 0.68 0.856715
Target:  5'- aGCAGCCCCucagccaCGGCGUCcuUcAACGCc -3'
miRNA:   3'- -UGUUGGGGua-----GCUGCAGuuGcUUGCG- -5'
19623 5' -50.9 NC_004686.1 + 23801 0.68 0.865068
Target:  5'- cGCAACCCCcgcCGAUGUgAGC-GugGCu -3'
miRNA:   3'- -UGUUGGGGua-GCUGCAgUUGcUugCG- -5'
19623 5' -50.9 NC_004686.1 + 22325 0.68 0.868339
Target:  5'- gACGGCCCCGccgguaauggcggguUCGGa-UCGGCGGGCGg -3'
miRNA:   3'- -UGUUGGGGU---------------AGCUgcAGUUGCUUGCg -5'
19623 5' -50.9 NC_004686.1 + 10757 0.69 0.800833
Target:  5'- gGC-ACCCCcgCGGCG-CAAgccgcccUGGACGCg -3'
miRNA:   3'- -UGuUGGGGuaGCUGCaGUU-------GCUUGCG- -5'
19623 5' -50.9 NC_004686.1 + 27724 0.69 0.791954
Target:  5'- gGCAACCCaGUCGGCGaagggcUCGGCaucguGAugGCg -3'
miRNA:   3'- -UGUUGGGgUAGCUGC------AGUUG-----CUugCG- -5'
19623 5' -50.9 NC_004686.1 + 55253 0.69 0.791954
Target:  5'- uCAACCUCAUCGGCcaauaCGACGAGgGUu -3'
miRNA:   3'- uGUUGGGGUAGCUGca---GUUGCUUgCG- -5'
19623 5' -50.9 NC_004686.1 + 29112 0.77 0.380522
Target:  5'- aGCAGCgUCGggaUCGGCGUCGGCGGGcCGCg -3'
miRNA:   3'- -UGUUGgGGU---AGCUGCAGUUGCUU-GCG- -5'
19623 5' -50.9 NC_004686.1 + 43742 0.74 0.530491
Target:  5'- cGCAACCugggccgccgcgCCAUCGGCGUCGAacucgaaGAACGg -3'
miRNA:   3'- -UGUUGG------------GGUAGCUGCAGUUg------CUUGCg -5'
19623 5' -50.9 NC_004686.1 + 21798 0.74 0.541338
Target:  5'- cCAACCCCuGUCGGCGcgacgCAcuuGCGggUGCg -3'
miRNA:   3'- uGUUGGGG-UAGCUGCa----GU---UGCuuGCG- -5'
19623 5' -50.9 NC_004686.1 + 41657 0.73 0.607673
Target:  5'- aACAACUCCuggaCGACG-CAGCGAagaaggGCGCg -3'
miRNA:   3'- -UGUUGGGGua--GCUGCaGUUGCU------UGCG- -5'
19623 5' -50.9 NC_004686.1 + 52057 0.72 0.663618
Target:  5'- cGCAA-CCCAUCGcCGUgCAACGAuUGCa -3'
miRNA:   3'- -UGUUgGGGUAGCuGCA-GUUGCUuGCG- -5'
19623 5' -50.9 NC_004686.1 + 4271 0.71 0.696904
Target:  5'- --cGCCCaCGUcCGGCgGUCAACGGACGg -3'
miRNA:   3'- uguUGGG-GUA-GCUG-CAGUUGCUUGCg -5'
19623 5' -50.9 NC_004686.1 + 24865 0.7 0.740319
Target:  5'- cACAggacACCCCGccaUCGACuucuUCAuCGAACGCg -3'
miRNA:   3'- -UGU----UGGGGU---AGCUGc---AGUuGCUUGCG- -5'
19623 5' -50.9 NC_004686.1 + 41605 0.7 0.771735
Target:  5'- aACuACCCCAccgaaaUCGAaGUUGAgGAACGCg -3'
miRNA:   3'- -UGuUGGGGU------AGCUgCAGUUgCUUGCG- -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.