miRNA display CGI


Results 1 - 20 of 168 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
19040 3' -62.6 NC_004684.1 + 66655 0.7 0.246504
Target:  5'- gCCucGGCGGCgGCCcGGUcaccgGCGGUGCCCAg -3'
miRNA:   3'- -GGc-CCGCCG-UGGuCCA-----UGCCGUGGGU- -5'
19040 3' -62.6 NC_004684.1 + 53478 0.71 0.204535
Target:  5'- aCGGGUGGUugGCCAGGUaggcgucgAUGGCggggaagagguccggGCCCAg -3'
miRNA:   3'- gGCCCGCCG--UGGUCCA--------UGCCG---------------UGGGU- -5'
19040 3' -62.6 NC_004684.1 + 27943 0.71 0.20761
Target:  5'- gCCGGaGCuGGCACCGuGGUACGuCGCCgAa -3'
miRNA:   3'- -GGCC-CG-CCGUGGU-CCAUGCcGUGGgU- -5'
19040 3' -62.6 NC_004684.1 + 26539 0.7 0.218149
Target:  5'- cCUGGGCGGUcagGCCGGGgugUACGcguuccggcGCGCCCu -3'
miRNA:   3'- -GGCCCGCCG---UGGUCC---AUGC---------CGUGGGu -5'
19040 3' -62.6 NC_004684.1 + 54059 0.7 0.218149
Target:  5'- -aGGGUuaccaGGUuuACCGGGUGCGGUgACCCGg -3'
miRNA:   3'- ggCCCG-----CCG--UGGUCCAUGCCG-UGGGU- -5'
19040 3' -62.6 NC_004684.1 + 62391 0.7 0.221399
Target:  5'- -aGGaGCGGCACCGGGcccuugcccucgcGCuGCGCCCAg -3'
miRNA:   3'- ggCC-CGCCGUGGUCCa------------UGcCGUGGGU- -5'
19040 3' -62.6 NC_004684.1 + 34150 0.7 0.234811
Target:  5'- cUCGGGCGGCAC--GGUGCugcucaccGGCacGCCCGa -3'
miRNA:   3'- -GGCCCGCCGUGguCCAUG--------CCG--UGGGU- -5'
19040 3' -62.6 NC_004684.1 + 30643 0.7 0.245908
Target:  5'- gCGGGCcagaacggcauccGGCuCCAGGUGCGgGCAUaCCAc -3'
miRNA:   3'- gGCCCG-------------CCGuGGUCCAUGC-CGUG-GGU- -5'
19040 3' -62.6 NC_004684.1 + 20975 0.7 0.246504
Target:  5'- gUCGGaGCGGCgGCgCAGGUcggcccgauccuGCGGCgcACCCAu -3'
miRNA:   3'- -GGCC-CGCCG-UG-GUCCA------------UGCCG--UGGGU- -5'
19040 3' -62.6 NC_004684.1 + 19716 0.71 0.202507
Target:  5'- cCUGGGaCGGcCACUcGGUgagcGCGGCACCUg -3'
miRNA:   3'- -GGCCC-GCC-GUGGuCCA----UGCCGUGGGu -5'
19040 3' -62.6 NC_004684.1 + 60747 0.71 0.192628
Target:  5'- aCCGGGUGGcCGCCGGGUGgGGguUggUCAg -3'
miRNA:   3'- -GGCCCGCC-GUGGUCCAUgCCguG--GGU- -5'
19040 3' -62.6 NC_004684.1 + 325 0.71 0.187377
Target:  5'- aCCGGGCGGCccaACgAGGUguugGCGGgcaaccaCACCCu -3'
miRNA:   3'- -GGCCCGCCG---UGgUCCA----UGCC-------GUGGGu -5'
19040 3' -62.6 NC_004684.1 + 19552 0.79 0.055845
Target:  5'- gCCGGGCGGUGCCAGGUcuccgggccugGCGucguGCACCUg -3'
miRNA:   3'- -GGCCCGCCGUGGUCCA-----------UGC----CGUGGGu -5'
19040 3' -62.6 NC_004684.1 + 43457 0.75 0.10358
Target:  5'- gCGGGCgcGGCAgCAGGUGCGGCGgCa- -3'
miRNA:   3'- gGCCCG--CCGUgGUCCAUGCCGUgGgu -5'
19040 3' -62.6 NC_004684.1 + 1632 0.75 0.106356
Target:  5'- aCCGGcGCa--ACCGGGUAcCGGCGCCCAa -3'
miRNA:   3'- -GGCC-CGccgUGGUCCAU-GCCGUGGGU- -5'
19040 3' -62.6 NC_004684.1 + 24839 0.74 0.124532
Target:  5'- -aGGGCGGCagcgguagcgccACCGGGccguuCGGCACCCc -3'
miRNA:   3'- ggCCCGCCG------------UGGUCCau---GCCGUGGGu -5'
19040 3' -62.6 NC_004684.1 + 25817 0.73 0.15325
Target:  5'- gCCGGGUGGCgGCCAGa-ACGGCAUCg- -3'
miRNA:   3'- -GGCCCGCCG-UGGUCcaUGCCGUGGgu -5'
19040 3' -62.6 NC_004684.1 + 33516 0.73 0.15325
Target:  5'- gCGGGCGGUggcggcuauGCgGGGUcguACGGCACCg- -3'
miRNA:   3'- gGCCCGCCG---------UGgUCCA---UGCCGUGGgu -5'
19040 3' -62.6 NC_004684.1 + 9658 0.72 0.169763
Target:  5'- uCCGGGCGGCggugaagcGCgCGGuGUACGGCGagcugaCCAa -3'
miRNA:   3'- -GGCCCGCCG--------UG-GUC-CAUGCCGUg-----GGU- -5'
19040 3' -62.6 NC_004684.1 + 5875 0.72 0.178603
Target:  5'- gCCGGGCaGCACCagccugaccGGGUggcgGCGGCGCUg- -3'
miRNA:   3'- -GGCCCGcCGUGG---------UCCA----UGCCGUGGgu -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.