miRNA display CGI


Results 1 - 20 of 21 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
26950 3' -54.5 NC_005809.1 + 5235 0.66 0.701175
Target:  5'- -aGCaGUUCGcGCagUUCGGCCGGCAg -3'
miRNA:   3'- ccUGaCGAGCuUGaaGAGCCGGUCGU- -5'
26950 3' -54.5 NC_005809.1 + 32771 0.66 0.690053
Target:  5'- -cGCUGCUUG-ACUggUUCGGCguGCGc -3'
miRNA:   3'- ccUGACGAGCuUGAa-GAGCCGguCGU- -5'
26950 3' -54.5 NC_005809.1 + 13229 0.66 0.690053
Target:  5'- cGGCgcgugGUUCGAGga-CUUGGCCGGCGa -3'
miRNA:   3'- cCUGa----CGAGCUUgaaGAGCCGGUCGU- -5'
26950 3' -54.5 NC_005809.1 + 41875 0.66 0.690053
Target:  5'- uGGGCgguauCUUGGGCggCcCGGCCGGCGc -3'
miRNA:   3'- -CCUGac---GAGCUUGaaGaGCCGGUCGU- -5'
26950 3' -54.5 NC_005809.1 + 27503 0.66 0.690053
Target:  5'- cGGCgGcCUCGGccgccaGCUUCUCGGCgCGGUc -3'
miRNA:   3'- cCUGaC-GAGCU------UGAAGAGCCG-GUCGu -5'
26950 3' -54.5 NC_005809.1 + 11275 0.66 0.690053
Target:  5'- cGGC-GCUgGGACg-CUCGGCCAGg- -3'
miRNA:   3'- cCUGaCGAgCUUGaaGAGCCGGUCgu -5'
26950 3' -54.5 NC_005809.1 + 11728 0.66 0.674388
Target:  5'- uGGACUGCgcaccccauugugCGAACUgaUCGGCgacagguugCAGCGg -3'
miRNA:   3'- -CCUGACGa------------GCUUGAagAGCCG---------GUCGU- -5'
26950 3' -54.5 NC_005809.1 + 8367 0.66 0.656385
Target:  5'- gGGAUguccgGCUCGAACccggcCUCGcGCUGGCu -3'
miRNA:   3'- -CCUGa----CGAGCUUGaa---GAGC-CGGUCGu -5'
26950 3' -54.5 NC_005809.1 + 9870 0.67 0.599939
Target:  5'- uGGcACcgGCgCGcuGCUUCUCGGCCAgGCGc -3'
miRNA:   3'- -CC-UGa-CGaGCu-UGAAGAGCCGGU-CGU- -5'
26950 3' -54.5 NC_005809.1 + 10756 0.67 0.599939
Target:  5'- aGGGCgcGCUCG-ACU--UCGGCCcGCAg -3'
miRNA:   3'- -CCUGa-CGAGCuUGAagAGCCGGuCGU- -5'
26950 3' -54.5 NC_005809.1 + 448 0.67 0.588697
Target:  5'- uGGGCUGCU---GCg---CGGCCAGCu -3'
miRNA:   3'- -CCUGACGAgcuUGaagaGCCGGUCGu -5'
26950 3' -54.5 NC_005809.1 + 28063 0.68 0.577493
Target:  5'- cGGuCUGCUCGAACagCgggcaggUGGCCgcGGCGu -3'
miRNA:   3'- -CCuGACGAGCUUGaaGa------GCCGG--UCGU- -5'
26950 3' -54.5 NC_005809.1 + 11034 0.68 0.555235
Target:  5'- -uGCUGCacCGGGCcgUUCUCGGCC-GCAu -3'
miRNA:   3'- ccUGACGa-GCUUG--AAGAGCCGGuCGU- -5'
26950 3' -54.5 NC_005809.1 + 19872 0.68 0.555235
Target:  5'- cGGGCgUGC-CGAAggcgucgcgcgcCUUCUUGGCCguGGCAa -3'
miRNA:   3'- -CCUG-ACGaGCUU------------GAAGAGCCGG--UCGU- -5'
26950 3' -54.5 NC_005809.1 + 2729 0.68 0.5442
Target:  5'- cGGAC-GCUUGAGCg---CGGcCCGGCGc -3'
miRNA:   3'- -CCUGaCGAGCUUGaagaGCC-GGUCGU- -5'
26950 3' -54.5 NC_005809.1 + 370 0.69 0.479751
Target:  5'- gGGugUGCUuggccugccgauUGAGCg---CGGCCAGCGc -3'
miRNA:   3'- -CCugACGA------------GCUUGaagaGCCGGUCGU- -5'
26950 3' -54.5 NC_005809.1 + 8613 0.71 0.409637
Target:  5'- -aGCUGgUUGcGCUUCUCGGCCGcuGCGg -3'
miRNA:   3'- ccUGACgAGCuUGAAGAGCCGGU--CGU- -5'
26950 3' -54.5 NC_005809.1 + 4576 0.72 0.349688
Target:  5'- aGGcGCUGCUCGGugcgccaggcgaggaACUgCUCGGCCucGGCGa -3'
miRNA:   3'- -CC-UGACGAGCU---------------UGAaGAGCCGG--UCGU- -5'
26950 3' -54.5 NC_005809.1 + 4723 0.74 0.26084
Target:  5'- uGGCUGCUucgaugaugaccgCGAugUUCUCGGCCAcggccGCGa -3'
miRNA:   3'- cCUGACGA-------------GCUugAAGAGCCGGU-----CGU- -5'
26950 3' -54.5 NC_005809.1 + 9901 0.77 0.155598
Target:  5'- -aACUGCUCGGGCUUCacgUCGGgCAGCu -3'
miRNA:   3'- ccUGACGAGCUUGAAG---AGCCgGUCGu -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.