miRNA display CGI


Results 1 - 19 of 19 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
27287 3' -56.5 NC_005856.1 + 47196 0.66 0.825819
Target:  5'- gUGCuCCGGUGCUAAUuuuaGCUUAguGCCa -3'
miRNA:   3'- gGCG-GGCCGCGAUUG----UGAGUauCGGc -5'
27287 3' -56.5 NC_005856.1 + 68413 0.66 0.808148
Target:  5'- aCGCCUGGUGuCUcuguugacgGAUGCUCAUcGUCGa -3'
miRNA:   3'- gGCGGGCCGC-GA---------UUGUGAGUAuCGGC- -5'
27287 3' -56.5 NC_005856.1 + 26297 0.66 0.807246
Target:  5'- -gGCCCuGGUGCUGuaACUCAUcauugauacguugAGCCa -3'
miRNA:   3'- ggCGGG-CCGCGAUugUGAGUA-------------UCGGc -5'
27287 3' -56.5 NC_005856.1 + 78250 0.66 0.78981
Target:  5'- aCGCUgGGUugUGACGCUCGccGCCGg -3'
miRNA:   3'- gGCGGgCCGcgAUUGUGAGUauCGGC- -5'
27287 3' -56.5 NC_005856.1 + 57209 0.67 0.767993
Target:  5'- aCGCaaCGGCGCUGAuuacuuCACUCGUguaacgcugacaauGGCCa -3'
miRNA:   3'- gGCGg-GCCGCGAUU------GUGAGUA--------------UCGGc -5'
27287 3' -56.5 NC_005856.1 + 49643 0.67 0.760242
Target:  5'- aCCGugaaauaCCCGGCGUUGAUguACUguUGGCgCGg -3'
miRNA:   3'- -GGC-------GGGCCGCGAUUG--UGAguAUCG-GC- -5'
27287 3' -56.5 NC_005856.1 + 10380 0.67 0.751431
Target:  5'- cCCGCCUGuaccGCaGCUAugGCcCAUacuGGCCGg -3'
miRNA:   3'- -GGCGGGC----CG-CGAUugUGaGUA---UCGGC- -5'
27287 3' -56.5 NC_005856.1 + 69145 0.67 0.751431
Target:  5'- cCCGUCaugcugaaGGCGCUAaucACGCUgGaAGCCa -3'
miRNA:   3'- -GGCGGg-------CCGCGAU---UGUGAgUaUCGGc -5'
27287 3' -56.5 NC_005856.1 + 10434 0.67 0.751431
Target:  5'- aCGCCCGGCGaaccgGGCGCUCcu-GUUa -3'
miRNA:   3'- gGCGGGCCGCga---UUGUGAGuauCGGc -5'
27287 3' -56.5 NC_005856.1 + 50883 0.67 0.739547
Target:  5'- aUGCCCGGCGCUacgggauagaccggaGuguguuacaaagcagGCcaAUUCAUAGCCa -3'
miRNA:   3'- gGCGGGCCGCGA---------------U---------------UG--UGAGUAUCGGc -5'
27287 3' -56.5 NC_005856.1 + 32365 0.68 0.711298
Target:  5'- -aGUCUGGCGU--GCACUCcauguguUAGCCGu -3'
miRNA:   3'- ggCGGGCCGCGauUGUGAGu------AUCGGC- -5'
27287 3' -56.5 NC_005856.1 + 36366 0.68 0.711298
Target:  5'- -aGUCUGGCGU--GCACUCcauguguUAGCCGu -3'
miRNA:   3'- ggCGGGCCGCGauUGUGAGu------AUCGGC- -5'
27287 3' -56.5 NC_005856.1 + 38400 0.68 0.701064
Target:  5'- gCCGCCCGGCGUU-GCAgugaUCGgAGCg- -3'
miRNA:   3'- -GGCGGGCCGCGAuUGUg---AGUaUCGgc -5'
27287 3' -56.5 NC_005856.1 + 7953 0.68 0.677312
Target:  5'- -gGCCCGGaUGCUGGCuuUCAUguauucgaugugauGGCCGu -3'
miRNA:   3'- ggCGGGCC-GCGAUUGugAGUA--------------UCGGC- -5'
27287 3' -56.5 NC_005856.1 + 11893 0.69 0.628259
Target:  5'- aCGUCUGcGCGCUGGCugUCGaAGUCc -3'
miRNA:   3'- gGCGGGC-CGCGAUUGugAGUaUCGGc -5'
27287 3' -56.5 NC_005856.1 + 23111 0.69 0.607353
Target:  5'- uUGCCCGGCauccAACGCcauUCAUGGCCa -3'
miRNA:   3'- gGCGGGCCGcga-UUGUG---AGUAUCGGc -5'
27287 3' -56.5 NC_005856.1 + 17071 0.7 0.555557
Target:  5'- gCCuCCCGGCGCaguCGgUCAUAGCUu -3'
miRNA:   3'- -GGcGGGCCGCGauuGUgAGUAUCGGc -5'
27287 3' -56.5 NC_005856.1 + 75499 0.74 0.376503
Target:  5'- cCUGCCCGaG-GCUGGCAUacauUCGUAGCCa -3'
miRNA:   3'- -GGCGGGC-CgCGAUUGUG----AGUAUCGGc -5'
27287 3' -56.5 NC_005856.1 + 10260 1.1 0.001348
Target:  5'- aCCGCCCGGCGCUAACACUCAUAGCCGc -3'
miRNA:   3'- -GGCGGGCCGCGAUUGUGAGUAUCGGC- -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.