miRNA display CGI


Results 1 - 20 of 36 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
18176 5' -55.8 NC_004680.1 + 12854 1.08 0.000936
Target:  5'- cUUCCCAGCAGCGCAAGGACAUCGACCc -3'
miRNA:   3'- -AAGGGUCGUCGCGUUCCUGUAGCUGG- -5'
18176 5' -55.8 NC_004680.1 + 53708 0.78 0.142485
Target:  5'- --aCCAGUguguugaagucguGGUGUGAGGACAUCGACCg -3'
miRNA:   3'- aagGGUCG-------------UCGCGUUCCUGUAGCUGG- -5'
18176 5' -55.8 NC_004680.1 + 11145 0.76 0.179962
Target:  5'- -gCCCGGCAGCaggaugccaucgacgGCGGGaGACAUCGACg -3'
miRNA:   3'- aaGGGUCGUCG---------------CGUUC-CUGUAGCUGg -5'
18176 5' -55.8 NC_004680.1 + 25053 0.73 0.29305
Target:  5'- gUCCCGGUGGCGguGGGGCcgGUCGGg- -3'
miRNA:   3'- aAGGGUCGUCGCguUCCUG--UAGCUgg -5'
18176 5' -55.8 NC_004680.1 + 48806 0.72 0.315004
Target:  5'- gUCCCAGCaucggaaagugguGGCGCAGGcGAuCcgUGACCa -3'
miRNA:   3'- aAGGGUCG-------------UCGCGUUC-CU-GuaGCUGG- -5'
18176 5' -55.8 NC_004680.1 + 37480 0.72 0.323651
Target:  5'- gUUCaUCGGCGGUGagAAGGACAUCGGCg -3'
miRNA:   3'- -AAG-GGUCGUCGCg-UUCCUGUAGCUGg -5'
18176 5' -55.8 NC_004680.1 + 2875 0.72 0.348125
Target:  5'- gUCaCCAGCcuGCGCcGGGACGaCGACUg -3'
miRNA:   3'- aAG-GGUCGu-CGCGuUCCUGUaGCUGG- -5'
18176 5' -55.8 NC_004680.1 + 17883 0.72 0.356571
Target:  5'- -gCgCAGCGGCGCAAGGAUgauGUUcACCa -3'
miRNA:   3'- aaGgGUCGUCGCGUUCCUG---UAGcUGG- -5'
18176 5' -55.8 NC_004680.1 + 56631 0.7 0.419618
Target:  5'- aUUCCacgaaCGGCAGgGCGAGGGCGaugucUCGGCg -3'
miRNA:   3'- -AAGG-----GUCGUCgCGUUCCUGU-----AGCUGg -5'
18176 5' -55.8 NC_004680.1 + 59064 0.7 0.448629
Target:  5'- -cCCCAGCGGUGUgugguguguuGGGGGCAUguGCCg -3'
miRNA:   3'- aaGGGUCGUCGCG----------UUCCUGUAgcUGG- -5'
18176 5' -55.8 NC_004680.1 + 57245 0.69 0.488963
Target:  5'- gUUCUCGGCGGCGCcGGGGaAUCcguGCCa -3'
miRNA:   3'- -AAGGGUCGUCGCGuUCCUgUAGc--UGG- -5'
18176 5' -55.8 NC_004680.1 + 18606 0.68 0.552384
Target:  5'- cUUCCCGGUguuGGUGC--GGGCAUCGcggACCu -3'
miRNA:   3'- -AAGGGUCG---UCGCGuuCCUGUAGC---UGG- -5'
18176 5' -55.8 NC_004680.1 + 16669 0.68 0.574106
Target:  5'- gUCCCAGCGGgGUucaAAGGcCA-CGACa -3'
miRNA:   3'- aAGGGUCGUCgCG---UUCCuGUaGCUGg -5'
18176 5' -55.8 NC_004680.1 + 23632 0.68 0.574106
Target:  5'- -aCCCggaAGCAcCGCGAGGGCAgugUUGAUCa -3'
miRNA:   3'- aaGGG---UCGUcGCGUUCCUGU---AGCUGG- -5'
18176 5' -55.8 NC_004680.1 + 34639 0.67 0.585042
Target:  5'- -aCCCacaacaugGGCGGCGCAGacGGAUA-CGACUg -3'
miRNA:   3'- aaGGG--------UCGUCGCGUU--CCUGUaGCUGG- -5'
18176 5' -55.8 NC_004680.1 + 34079 0.67 0.589429
Target:  5'- -cCCCAGCAGCGC--GGAacacgccacgccacaCGUCGuaguCCg -3'
miRNA:   3'- aaGGGUCGUCGCGuuCCU---------------GUAGCu---GG- -5'
18176 5' -55.8 NC_004680.1 + 49874 0.67 0.596018
Target:  5'- -cCCCGGUauccAGCGCAgcgAGGAUGUCuucGCCa -3'
miRNA:   3'- aaGGGUCG----UCGCGU---UCCUGUAGc--UGG- -5'
18176 5' -55.8 NC_004680.1 + 27543 0.67 0.596018
Target:  5'- aUCCCgcgccaGGCAGCGCG-GGACc-CGGCg -3'
miRNA:   3'- aAGGG------UCGUCGCGUuCCUGuaGCUGg -5'
18176 5' -55.8 NC_004680.1 + 33414 0.67 0.596018
Target:  5'- -gCUCGGCGGUGCGGGaGGCccCGAUCu -3'
miRNA:   3'- aaGGGUCGUCGCGUUC-CUGuaGCUGG- -5'
18176 5' -55.8 NC_004680.1 + 51809 0.67 0.618055
Target:  5'- -aCCgCAGCAGCgGCAAGcAgAUCGGCa -3'
miRNA:   3'- aaGG-GUCGUCG-CGUUCcUgUAGCUGg -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.