miRNA display CGI


Results 1 - 20 of 94 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
11656 3' -48.6 NC_003102.1 + 67233 0.66 0.998891
Target:  5'- aAAAAGUCaGaCACGUUUGAaUCGAAc -3'
miRNA:   3'- cUUUUCAGcCgGUGCAAGCUaAGCUU- -5'
11656 3' -48.6 NC_003102.1 + 61627 0.66 0.998891
Target:  5'- uGAAacAAGUCaGaCGCGUUCGAaUCGAAc -3'
miRNA:   3'- -CUU--UUCAGcCgGUGCAAGCUaAGCUU- -5'
11656 3' -48.6 NC_003102.1 + 61355 0.66 0.998647
Target:  5'- aGAAAAGUCaGaCACGUUCGAaUCa-- -3'
miRNA:   3'- -CUUUUCAGcCgGUGCAAGCUaAGcuu -5'
11656 3' -48.6 NC_003102.1 + 114257 0.66 0.998021
Target:  5'- cGAGAAaucGUCgaGGCgACGUaCGAUUCGGAc -3'
miRNA:   3'- -CUUUU---CAG--CCGgUGCAaGCUAAGCUU- -5'
11656 3' -48.6 NC_003102.1 + 16884 0.66 0.997985
Target:  5'- ----uGUCGGCgGCGaacgagaUUUGAUUCGGAu -3'
miRNA:   3'- cuuuuCAGCCGgUGC-------AAGCUAAGCUU- -5'
11656 3' -48.6 NC_003102.1 + 129919 0.66 0.997627
Target:  5'- ----cGUCGGCgAUGUUuacgagCGAUUCGAu -3'
miRNA:   3'- cuuuuCAGCCGgUGCAA------GCUAAGCUu -5'
11656 3' -48.6 NC_003102.1 + 23262 0.67 0.996032
Target:  5'- ---cAGUCGGCCAggcCGggCGAUugcaUCGGAc -3'
miRNA:   3'- cuuuUCAGCCGGU---GCaaGCUA----AGCUU- -5'
11656 3' -48.6 NC_003102.1 + 66383 0.67 0.995337
Target:  5'- -----aUCGGCCAUGUUCGAagCGu- -3'
miRNA:   3'- cuuuucAGCCGGUGCAAGCUaaGCuu -5'
11656 3' -48.6 NC_003102.1 + 281 0.67 0.995337
Target:  5'- ----cGUCGGCCucGCGUUCGAgagcaUCGu- -3'
miRNA:   3'- cuuuuCAGCCGG--UGCAAGCUa----AGCuu -5'
11656 3' -48.6 NC_003102.1 + 112809 0.67 0.995337
Target:  5'- cGAAAAGUCaGaCAgGUUCGAaUCGAAc -3'
miRNA:   3'- -CUUUUCAGcCgGUgCAAGCUaAGCUU- -5'
11656 3' -48.6 NC_003102.1 + 57886 0.67 0.995337
Target:  5'- aAAAAGcgccaCGGCCACGUUCGc--CGAGa -3'
miRNA:   3'- cUUUUCa----GCCGGUGCAAGCuaaGCUU- -5'
11656 3' -48.6 NC_003102.1 + 112923 0.67 0.994546
Target:  5'- cGAAAAGUUGGCCAgGUUCa------- -3'
miRNA:   3'- -CUUUUCAGCCGGUgCAAGcuaagcuu -5'
11656 3' -48.6 NC_003102.1 + 96343 0.68 0.99365
Target:  5'- aGAuuGUCGGCCAgGUUaGAaUCGAGa -3'
miRNA:   3'- cUUuuCAGCCGGUgCAAgCUaAGCUU- -5'
11656 3' -48.6 NC_003102.1 + 110667 0.68 0.99365
Target:  5'- ----uGUCGGCCACGUcgUUGA--CGAAa -3'
miRNA:   3'- cuuuuCAGCCGGUGCA--AGCUaaGCUU- -5'
11656 3' -48.6 NC_003102.1 + 35473 0.68 0.990236
Target:  5'- -cGAAGaCGGCCGCG-UCGAUccgugCGAAg -3'
miRNA:   3'- cuUUUCaGCCGGUGCaAGCUAa----GCUU- -5'
11656 3' -48.6 NC_003102.1 + 54634 0.68 0.990236
Target:  5'- aAAAAGUCaGCCAgGUUCGAUUa--- -3'
miRNA:   3'- cUUUUCAGcCGGUgCAAGCUAAgcuu -5'
11656 3' -48.6 NC_003102.1 + 89664 0.68 0.990236
Target:  5'- cGAAAAGUCaGCCACGUUCa------- -3'
miRNA:   3'- -CUUUUCAGcCGGUGCAAGcuaagcuu -5'
11656 3' -48.6 NC_003102.1 + 36188 0.69 0.987256
Target:  5'- uAAAAGUCGGaCACGUUCaaaUCGAAc -3'
miRNA:   3'- cUUUUCAGCCgGUGCAAGcuaAGCUU- -5'
11656 3' -48.6 NC_003102.1 + 54617 0.69 0.987256
Target:  5'- uAAAAGUCGGaCACGUUCaaaUCGAAc -3'
miRNA:   3'- cUUUUCAGCCgGUGCAAGcuaAGCUU- -5'
11656 3' -48.6 NC_003102.1 + 113737 0.69 0.985525
Target:  5'- --uGAG-CGGCCGCcacgUCGAUUCGGu -3'
miRNA:   3'- cuuUUCaGCCGGUGca--AGCUAAGCUu -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.