miRNA display CGI


Results 1 - 20 of 123 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
23609 3' -59.7 NC_005261.1 + 127641 0.66 0.704836
Target:  5'- aCGGCgGCGGcGCcGGGGg-GCGCGCGGGu -3'
miRNA:   3'- -GUCG-UGCC-CGaCCUUgaCGCGCGCUU- -5'
23609 3' -59.7 NC_005261.1 + 118365 0.66 0.704836
Target:  5'- uCGGC-CGGGCgcUGGg---GCGCGCGGc -3'
miRNA:   3'- -GUCGuGCCCG--ACCuugaCGCGCGCUu -5'
23609 3' -59.7 NC_005261.1 + 90203 0.66 0.704836
Target:  5'- gAGCGCggGGGCggcGGAGCgcccuCGCGCGGc -3'
miRNA:   3'- gUCGUG--CCCGa--CCUUGac---GCGCGCUu -5'
23609 3' -59.7 NC_005261.1 + 49124 0.66 0.704836
Target:  5'- gAGCgcgGCGGGC-GGGACccccGCGCGCa-- -3'
miRNA:   3'- gUCG---UGCCCGaCCUUGa---CGCGCGcuu -5'
23609 3' -59.7 NC_005261.1 + 43794 0.66 0.704836
Target:  5'- gGGCgccGCGGGUgagGGGGCgccggGCGCGCc-- -3'
miRNA:   3'- gUCG---UGCCCGa--CCUUGa----CGCGCGcuu -5'
23609 3' -59.7 NC_005261.1 + 30125 0.66 0.704836
Target:  5'- uGGCGCGGcccgcgacgcGgUGGAGC-GCGCGCGc- -3'
miRNA:   3'- gUCGUGCC----------CgACCUUGaCGCGCGCuu -5'
23609 3' -59.7 NC_005261.1 + 2546 0.66 0.704836
Target:  5'- cCAGCgccGCGGcGCUGGGcGCggGCGUGUGGu -3'
miRNA:   3'- -GUCG---UGCC-CGACCU-UGa-CGCGCGCUu -5'
23609 3' -59.7 NC_005261.1 + 59724 0.66 0.704836
Target:  5'- -cGC-CGGGC-GGcAGCggcgGCGCGCGGc -3'
miRNA:   3'- guCGuGCCCGaCC-UUGa---CGCGCGCUu -5'
23609 3' -59.7 NC_005261.1 + 82949 0.66 0.6948
Target:  5'- cCAGCGCGGcGCcGGGcggaagacguGgUGCGCGuCGAGc -3'
miRNA:   3'- -GUCGUGCC-CGaCCU----------UgACGCGC-GCUU- -5'
23609 3' -59.7 NC_005261.1 + 29890 0.66 0.684712
Target:  5'- cCAGCGCccGGGCccGcGGCaGCGCGCGAGc -3'
miRNA:   3'- -GUCGUG--CCCGa-CcUUGaCGCGCGCUU- -5'
23609 3' -59.7 NC_005261.1 + 104015 0.66 0.684712
Target:  5'- uGGCGCGcGcGCUGu-ACUGCGCGCc-- -3'
miRNA:   3'- gUCGUGC-C-CGACcuUGACGCGCGcuu -5'
23609 3' -59.7 NC_005261.1 + 48253 0.66 0.684712
Target:  5'- gCAGCGCGgggccaaugcaaGGCgGGGAC-GCGCGCa-- -3'
miRNA:   3'- -GUCGUGC------------CCGaCCUUGaCGCGCGcuu -5'
23609 3' -59.7 NC_005261.1 + 81968 0.66 0.684712
Target:  5'- aCAGCGCGGuGUUcGGcGGCUGCGCGa--- -3'
miRNA:   3'- -GUCGUGCC-CGA-CC-UUGACGCGCgcuu -5'
23609 3' -59.7 NC_005261.1 + 100661 0.66 0.684712
Target:  5'- aCGGCGCGcgucGC-GGggUUcGCGCGCGAGu -3'
miRNA:   3'- -GUCGUGCc---CGaCCuuGA-CGCGCGCUU- -5'
23609 3' -59.7 NC_005261.1 + 76555 0.66 0.67458
Target:  5'- aCGGCAUGGGCgacgaggGcGAGCUcguccucaCGCGCGAGc -3'
miRNA:   3'- -GUCGUGCCCGa------C-CUUGAc-------GCGCGCUU- -5'
23609 3' -59.7 NC_005261.1 + 44246 0.66 0.67458
Target:  5'- cCAGCGCGcGGCc-GAcgccGCgGCGCGCGGGg -3'
miRNA:   3'- -GUCGUGC-CCGacCU----UGaCGCGCGCUU- -5'
23609 3' -59.7 NC_005261.1 + 97744 0.66 0.67458
Target:  5'- uGGCAgGGGC-GGGGCgggcucgGCGgCGCGGc -3'
miRNA:   3'- gUCGUgCCCGaCCUUGa------CGC-GCGCUu -5'
23609 3' -59.7 NC_005261.1 + 59057 0.66 0.67458
Target:  5'- uCAGCGCGcgcGGCcgcGGAGagcGCGCGCGGGu -3'
miRNA:   3'- -GUCGUGC---CCGa--CCUUga-CGCGCGCUU- -5'
23609 3' -59.7 NC_005261.1 + 131953 0.66 0.664413
Target:  5'- -cGCGCccgucuaccGGG-UGGAGCUGCcGCGCGGc -3'
miRNA:   3'- guCGUG---------CCCgACCUUGACG-CGCGCUu -5'
23609 3' -59.7 NC_005261.1 + 120422 0.66 0.664413
Target:  5'- gCGGCcUGGGCUGGugAACaUGCGCgGCGu- -3'
miRNA:   3'- -GUCGuGCCCGACC--UUG-ACGCG-CGCuu -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.