miRNA display CGI


Results 1 - 20 of 39 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
19280 5' -60.7 NC_004685.1 + 64914 1.06 0.000612
Target:  5'- uACAACAUGCCCCAUCCGCCCGCGCCUc -3'
miRNA:   3'- -UGUUGUACGGGGUAGGCGGGCGCGGA- -5'
19280 5' -60.7 NC_004685.1 + 68740 0.76 0.109529
Target:  5'- ---cCGUGCCCCGcaUCCGCCCGCaggacugcgGCCUg -3'
miRNA:   3'- uguuGUACGGGGU--AGGCGGGCG---------CGGA- -5'
19280 5' -60.7 NC_004685.1 + 68591 0.75 0.128702
Target:  5'- gACGACugAUGCCCCGcaUCCGCCCGCa--- -3'
miRNA:   3'- -UGUUG--UACGGGGU--AGGCGGGCGcgga -5'
19280 5' -60.7 NC_004685.1 + 37959 0.73 0.170736
Target:  5'- uACAcgGUGCCCgAaggcguggaugagaUUCGCCCGCGCCUg -3'
miRNA:   3'- -UGUugUACGGGgU--------------AGGCGGGCGCGGA- -5'
19280 5' -60.7 NC_004685.1 + 37410 0.72 0.190851
Target:  5'- ------cGCCaCCAggaCCGCCCGCGCCa -3'
miRNA:   3'- uguuguaCGG-GGUa--GGCGGGCGCGGa -5'
19280 5' -60.7 NC_004685.1 + 17298 0.72 0.190851
Target:  5'- gGCAGCGUGCCCgCAUCCGgCacgaGCugGCCa -3'
miRNA:   3'- -UGUUGUACGGG-GUAGGCgGg---CG--CGGa -5'
19280 5' -60.7 NC_004685.1 + 41625 0.72 0.211401
Target:  5'- gGCGACcucaGCCUCAgccUUgGCCCGCGCCUu -3'
miRNA:   3'- -UGUUGua--CGGGGU---AGgCGGGCGCGGA- -5'
19280 5' -60.7 NC_004685.1 + 35559 0.71 0.239737
Target:  5'- cGCAGC-UGCaCCAcCUGCCCGCGCUc -3'
miRNA:   3'- -UGUUGuACGgGGUaGGCGGGCGCGGa -5'
19280 5' -60.7 NC_004685.1 + 59881 0.71 0.239737
Target:  5'- cGCAGCGUGCCCuCAg-CGCCaGCGUCa -3'
miRNA:   3'- -UGUUGUACGGG-GUagGCGGgCGCGGa -5'
19280 5' -60.7 NC_004685.1 + 44743 0.7 0.258219
Target:  5'- cCGGCGUGCCCUgguggGUCgGaCCCGaCGCCg -3'
miRNA:   3'- uGUUGUACGGGG-----UAGgC-GGGC-GCGGa -5'
19280 5' -60.7 NC_004685.1 + 50751 0.7 0.264633
Target:  5'- uGCAcCuugGCCgCCAgcaUCuCGCCCGCGCCg -3'
miRNA:   3'- -UGUuGua-CGG-GGU---AG-GCGGGCGCGGa -5'
19280 5' -60.7 NC_004685.1 + 15977 0.7 0.264633
Target:  5'- gACGGCua-CCCCAUCCGguUCCGCGUCg -3'
miRNA:   3'- -UGUUGuacGGGGUAGGC--GGGCGCGGa -5'
19280 5' -60.7 NC_004685.1 + 51470 0.7 0.277849
Target:  5'- gACGACA-GCUCgAUCCaGUCCGCGUCg -3'
miRNA:   3'- -UGUUGUaCGGGgUAGG-CGGGCGCGGa -5'
19280 5' -60.7 NC_004685.1 + 30423 0.7 0.284652
Target:  5'- cACGGCGaggcguUGCCCgAcgCCGUUCGCGCCg -3'
miRNA:   3'- -UGUUGU------ACGGGgUa-GGCGGGCGCGGa -5'
19280 5' -60.7 NC_004685.1 + 58803 0.69 0.328232
Target:  5'- cCGACAcGCCaCCGUCgGCacugcccgacaCCGCGCCUu -3'
miRNA:   3'- uGUUGUaCGG-GGUAGgCG-----------GGCGCGGA- -5'
19280 5' -60.7 NC_004685.1 + 6876 0.69 0.328232
Target:  5'- uCAGCcgGCCCCGguUCC-CCCG-GCCg -3'
miRNA:   3'- uGUUGuaCGGGGU--AGGcGGGCgCGGa -5'
19280 5' -60.7 NC_004685.1 + 25556 0.69 0.328232
Target:  5'- ------gGUCCCAUuuGCCCuGCGCCg -3'
miRNA:   3'- uguuguaCGGGGUAggCGGG-CGCGGa -5'
19280 5' -60.7 NC_004685.1 + 11879 0.68 0.343816
Target:  5'- gACGACGUGaa-CA-CgGCCCGCGCCUu -3'
miRNA:   3'- -UGUUGUACgggGUaGgCGGGCGCGGA- -5'
19280 5' -60.7 NC_004685.1 + 69539 0.68 0.349394
Target:  5'- aGCAGCu--CCCCggCCaccccggcagccgcGCCCGCGCCg -3'
miRNA:   3'- -UGUUGuacGGGGuaGG--------------CGGGCGCGGa -5'
19280 5' -60.7 NC_004685.1 + 20298 0.68 0.359925
Target:  5'- gACGGCGUGCCCUacGUCUaugucgauguGCCCGacggGCCg -3'
miRNA:   3'- -UGUUGUACGGGG--UAGG----------CGGGCg---CGGa -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.