miRNA display CGI


Results 1 - 20 of 52 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
22557 3' -57.2 NC_005091.1 + 5097 0.75 0.164217
Target:  5'- cUGCGGGGCguGACAUGGGCGGCccGUa -3'
miRNA:   3'- aACGUCUCG--CUGUGCUCGCCGuaCGg -5'
22557 3' -57.2 NC_005091.1 + 993 0.66 0.550633
Target:  5'- -cGCAGGccugcuCGACGCGGGCGcGC-UGCUc -3'
miRNA:   3'- aaCGUCUc-----GCUGUGCUCGC-CGuACGG- -5'
22557 3' -57.2 NC_005091.1 + 25746 0.66 0.550633
Target:  5'- gUGCAGu---ACACGGGCGGUcucgGCCa -3'
miRNA:   3'- aACGUCucgcUGUGCUCGCCGua--CGG- -5'
22557 3' -57.2 NC_005091.1 + 55844 0.67 0.528217
Target:  5'- -cGCAGccggucagcaacuGGCG-CACGAGCuGCAcgGCCu -3'
miRNA:   3'- aaCGUC-------------UCGCuGUGCUCGcCGUa-CGG- -5'
22557 3' -57.2 NC_005091.1 + 26228 0.67 0.497842
Target:  5'- -gGCAGcuuCGGCcUGAGCGGCA-GCCc -3'
miRNA:   3'- aaCGUCuc-GCUGuGCUCGCCGUaCGG- -5'
22557 3' -57.2 NC_005091.1 + 49484 0.68 0.477357
Target:  5'- -aGCAGGccaauuGCGAacacgACGAGCGGCAgGCa -3'
miRNA:   3'- aaCGUCU------CGCUg----UGCUCGCCGUaCGg -5'
22557 3' -57.2 NC_005091.1 + 43611 0.68 0.457297
Target:  5'- uUUGuCGGA-CGGCGUGAGCGGCGcaccuuucUGCCa -3'
miRNA:   3'- -AAC-GUCUcGCUGUGCUCGCCGU--------ACGG- -5'
22557 3' -57.2 NC_005091.1 + 36307 0.69 0.418589
Target:  5'- aUGCGcGAGCGuc----GCGGCGUGCCg -3'
miRNA:   3'- aACGU-CUCGCugugcuCGCCGUACGG- -5'
22557 3' -57.2 NC_005091.1 + 3036 0.69 0.418589
Target:  5'- -cGCAGAGCGAgaaCGCGAuucGCGUGCUg -3'
miRNA:   3'- aaCGUCUCGCU---GUGCUcgcCGUACGG- -5'
22557 3' -57.2 NC_005091.1 + 15626 0.69 0.3909
Target:  5'- -aGCGGAGCGcugUugGAGCGGUAguagguUGCg -3'
miRNA:   3'- aaCGUCUCGCu--GugCUCGCCGU------ACGg -5'
22557 3' -57.2 NC_005091.1 + 1396 0.7 0.373117
Target:  5'- cUGUuc-GCGcCgAUGGGCGGCAUGCCg -3'
miRNA:   3'- aACGucuCGCuG-UGCUCGCCGUACGG- -5'
22557 3' -57.2 NC_005091.1 + 28692 0.71 0.303098
Target:  5'- cUGCGG-GCG-CACGAcacacgccggggccuGCGcGCAUGCCa -3'
miRNA:   3'- aACGUCuCGCuGUGCU---------------CGC-CGUACGG- -5'
22557 3' -57.2 NC_005091.1 + 2492 0.71 0.292705
Target:  5'- -cGgAGuGCGGCACGAGauCGGCGUGUUu -3'
miRNA:   3'- aaCgUCuCGCUGUGCUC--GCCGUACGG- -5'
22557 3' -57.2 NC_005091.1 + 55598 0.72 0.257861
Target:  5'- gUGCAGgcGGCGAUcgGCGAagugauGCGGCAaGCCg -3'
miRNA:   3'- aACGUC--UCGCUG--UGCU------CGCCGUaCGG- -5'
22557 3' -57.2 NC_005091.1 + 28260 0.72 0.257861
Target:  5'- gUGCAaccGGCGACGCGcuGGCGGCuUGCg -3'
miRNA:   3'- aACGUc--UCGCUGUGC--UCGCCGuACGg -5'
22557 3' -57.2 NC_005091.1 + 48720 0.72 0.251313
Target:  5'- cUGCAcGAGCGACACGGagauaCGGcCAUGCg -3'
miRNA:   3'- aACGU-CUCGCUGUGCUc----GCC-GUACGg -5'
22557 3' -57.2 NC_005091.1 + 39333 0.73 0.213169
Target:  5'- cUGCGuAGCGACACGcAGCGGCgcgaucacgagacaGUGCUu -3'
miRNA:   3'- aACGUcUCGCUGUGC-UCGCCG--------------UACGG- -5'
22557 3' -57.2 NC_005091.1 + 33422 0.74 0.198402
Target:  5'- -aGCAGGGCGuccuCGCGAGCGcGC-UGCg -3'
miRNA:   3'- aaCGUCUCGCu---GUGCUCGC-CGuACGg -5'
22557 3' -57.2 NC_005091.1 + 51600 0.75 0.177687
Target:  5'- -cGCAGAagcGCGGCACGGGCgcgauucGGCAugauaUGCCg -3'
miRNA:   3'- aaCGUCU---CGCUGUGCUCG-------CCGU-----ACGG- -5'
22557 3' -57.2 NC_005091.1 + 32042 0.8 0.076901
Target:  5'- -gGC-GAGCGACGCGAGCaGCAcguUGCCg -3'
miRNA:   3'- aaCGuCUCGCUGUGCUCGcCGU---ACGG- -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.