miRNA display CGI


Results 1 - 20 of 91 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
19227 3' -58.9 NC_004684.1 + 45956 1.08 0.000608
Target:  5'- gUACUCGACGGCGGCCUCCAUGACCUCg -3'
miRNA:   3'- -AUGAGCUGCCGCCGGAGGUACUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 63997 0.83 0.041862
Target:  5'- -cCUUGGCGGCGGUCUCCAggcgcuugccgcgcuUGACCUCg -3'
miRNA:   3'- auGAGCUGCCGCCGGAGGU---------------ACUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 11344 0.82 0.051931
Target:  5'- -cCUUGACGGCGGCCUCCA-GGCC-Ca -3'
miRNA:   3'- auGAGCUGCCGCCGGAGGUaCUGGaG- -5'
19227 3' -58.9 NC_004684.1 + 60293 0.8 0.072786
Target:  5'- gGCcCGGuccuCGGCGGCCUCCAgGGCCUCg -3'
miRNA:   3'- aUGaGCU----GCCGCCGGAGGUaCUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 40531 0.78 0.096108
Target:  5'- gUugUCGGCGGUGGCgacCUCCGcGACCUCc -3'
miRNA:   3'- -AugAGCUGCCGCCG---GAGGUaCUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 25328 0.77 0.116471
Target:  5'- gGCggCGuAUGGCGGCCUCCccgGUGGCCUUg -3'
miRNA:   3'- aUGa-GC-UGCCGCCGGAGG---UACUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 66818 0.76 0.13341
Target:  5'- -uCUCGACGGUGGCCUCgGccuUGuCCUCc -3'
miRNA:   3'- auGAGCUGCCGCCGGAGgU---ACuGGAG- -5'
19227 3' -58.9 NC_004684.1 + 44765 0.75 0.148964
Target:  5'- cGCU-GGCGGCGGCCUCCcacagcgccguaacGGCCUCa -3'
miRNA:   3'- aUGAgCUGCCGCCGGAGGua------------CUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 54517 0.75 0.152593
Target:  5'- gGCUcccCGGCGGCGGCCUCgGcgguggcGGCCUCg -3'
miRNA:   3'- aUGA---GCUGCCGCCGGAGgUa------CUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 66500 0.74 0.174245
Target:  5'- -cCUUGGCGGCGGCCUCgCG-GGCCg- -3'
miRNA:   3'- auGAGCUGCCGCCGGAG-GUaCUGGag -5'
19227 3' -58.9 NC_004684.1 + 40353 0.74 0.188517
Target:  5'- cGCU-GGCGGCGGCCUuggCCuugggGGCCUCg -3'
miRNA:   3'- aUGAgCUGCCGCCGGA---GGua---CUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 46801 0.74 0.198594
Target:  5'- cGCUCGGCGugaGCGuGCCUUCGacggUGACCUCc -3'
miRNA:   3'- aUGAGCUGC---CGC-CGGAGGU----ACUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 33734 0.73 0.231675
Target:  5'- cUACUCGACGcagcGCGGCCaggacgcCCccGACCUCa -3'
miRNA:   3'- -AUGAGCUGC----CGCCGGa------GGuaCUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 45381 0.73 0.231675
Target:  5'- aGgUCGGCGaGCaccGGCC-CCAUGGCCUCc -3'
miRNA:   3'- aUgAGCUGC-CG---CCGGaGGUACUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 66934 0.72 0.249894
Target:  5'- -cCUCGGCGaaGGCCUCCGgcgcGAUCUCg -3'
miRNA:   3'- auGAGCUGCcgCCGGAGGUa---CUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 18556 0.72 0.249894
Target:  5'- cUACgacgCGACGGCGGCCgaggUCAaGACCg- -3'
miRNA:   3'- -AUGa---GCUGCCGCCGGa---GGUaCUGGag -5'
19227 3' -58.9 NC_004684.1 + 10489 0.72 0.262686
Target:  5'- gACaCGAUGGCGGCCU---UGGCCUCc -3'
miRNA:   3'- aUGaGCUGCCGCCGGAgguACUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 65299 0.71 0.26928
Target:  5'- aACgCGACGGCGGCCUCgCuGUGcACCa- -3'
miRNA:   3'- aUGaGCUGCCGCCGGAG-G-UAC-UGGag -5'
19227 3' -58.9 NC_004684.1 + 11373 0.71 0.276006
Target:  5'- gUGC-CGGUGGUGGCgUCCAucgUGGCCUCg -3'
miRNA:   3'- -AUGaGCUGCCGCCGgAGGU---ACUGGAG- -5'
19227 3' -58.9 NC_004684.1 + 55333 0.71 0.282865
Target:  5'- cGCUCGGCGGCcaggcgagccGCCUCCugcuggucgagcAUGGCCUUg -3'
miRNA:   3'- aUGAGCUGCCGc---------CGGAGG------------UACUGGAG- -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.