miRNA display CGI


Results 1 - 20 of 49 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
24378 5' -56.8 NC_005264.1 + 91879 0.66 0.924261
Target:  5'- gUCGAGGuAGcGGGguGGUUGg--CCGCGg -3'
miRNA:   3'- -GGCUCC-UC-UCCguUCAGCagaGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 3863 0.66 0.918842
Target:  5'- gCCGGGGAuuGGGCugccccaCGUCUCCGUc -3'
miRNA:   3'- -GGCUCCUc-UCCGuuca---GCAGAGGCGc -5'
24378 5' -56.8 NC_005264.1 + 64705 0.66 0.913197
Target:  5'- -gGAGGGGA-GCGAGUuuacugCGUCcUCCGUGu -3'
miRNA:   3'- ggCUCCUCUcCGUUCA------GCAG-AGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 95933 0.66 0.909111
Target:  5'- gCCGAGGAGAuuucaaagacgguccGGgAuaugguGUCGcggcugcUCUCCGCGc -3'
miRNA:   3'- -GGCUCCUCU---------------CCgUu-----CAGC-------AGAGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 144319 0.66 0.905521
Target:  5'- -gGGGGAGAcggcgcccccgaucGGCAAGgCGUUUUCGCc -3'
miRNA:   3'- ggCUCCUCU--------------CCGUUCaGCAGAGGCGc -5'
24378 5' -56.8 NC_005264.1 + 53213 0.66 0.901231
Target:  5'- gCCGAGGuAGuGGaCGcGUa-UCUCCGCGa -3'
miRNA:   3'- -GGCUCC-UCuCC-GUuCAgcAGAGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 2621 0.66 0.894915
Target:  5'- gCCGAgcaGGcGGGGCgGAGUCuucuGUCUCCGUc -3'
miRNA:   3'- -GGCU---CCuCUCCG-UUCAG----CAGAGGCGc -5'
24378 5' -56.8 NC_005264.1 + 121648 0.66 0.894915
Target:  5'- gCCGAgcaGGcGGGGCgGAGUCuucuGUCUCCGUc -3'
miRNA:   3'- -GGCU---CCuCUCCG-UUCAG----CAGAGGCGc -5'
24378 5' -56.8 NC_005264.1 + 34443 0.67 0.88838
Target:  5'- uUCGAGGAGGcgauCAAGcUCGUC-CCGCa -3'
miRNA:   3'- -GGCUCCUCUcc--GUUC-AGCAGaGGCGc -5'
24378 5' -56.8 NC_005264.1 + 123550 0.67 0.88838
Target:  5'- uCCGcGGAGGGGgAggGGUgGUCUUCgGCGu -3'
miRNA:   3'- -GGCuCCUCUCCgU--UCAgCAGAGG-CGC- -5'
24378 5' -56.8 NC_005264.1 + 120452 0.67 0.88838
Target:  5'- gCGGGGAuGAGGaAAGg-GcCUCCGCGg -3'
miRNA:   3'- gGCUCCU-CUCCgUUCagCaGAGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 4523 0.67 0.88838
Target:  5'- uCCGcGGAGGGGgAggGGUgGUCUUCgGCGu -3'
miRNA:   3'- -GGCuCCUCUCCgU--UCAgCAGAGG-CGC- -5'
24378 5' -56.8 NC_005264.1 + 76502 0.67 0.88838
Target:  5'- gUCGGGGGGAauaGGCGAc-CGUCUaCCGCc -3'
miRNA:   3'- -GGCUCCUCU---CCGUUcaGCAGA-GGCGc -5'
24378 5' -56.8 NC_005264.1 + 1425 0.67 0.88838
Target:  5'- gCGGGGAuGAGGaAAGg-GcCUCCGCGg -3'
miRNA:   3'- gGCUCCU-CUCCgUUCagCaGAGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 161202 0.67 0.88163
Target:  5'- cCCGGaaaGAGAuGGCAGGUUGgagCCGCGc -3'
miRNA:   3'- -GGCUc--CUCU-CCGUUCAGCagaGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 19414 0.67 0.88163
Target:  5'- --uGGGGGAGGCGAGgCGcCggguguggCCGCGg -3'
miRNA:   3'- ggcUCCUCUCCGUUCaGCaGa-------GGCGC- -5'
24378 5' -56.8 NC_005264.1 + 140165 0.67 0.88163
Target:  5'- uUCGAGGaAGAgcGGCGAGacgcUCGUcCUUCGUGg -3'
miRNA:   3'- -GGCUCC-UCU--CCGUUC----AGCA-GAGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 42175 0.67 0.88163
Target:  5'- cCCGGaaaGAGAuGGCAGGUUGgagCCGCGc -3'
miRNA:   3'- -GGCUc--CUCU-CCGUUCAGCagaGGCGC- -5'
24378 5' -56.8 NC_005264.1 + 16411 0.67 0.860133
Target:  5'- aCucGGGGAGGCAAGggcCGcUCgacugCCGCGg -3'
miRNA:   3'- gGcuCCUCUCCGUUCa--GC-AGa----GGCGC- -5'
24378 5' -56.8 NC_005264.1 + 15989 0.67 0.848715
Target:  5'- cCCGGGGAGAuuuagccgcaucauGGCAGGcgacgaccgccgCGcCUCCGUGc -3'
miRNA:   3'- -GGCUCCUCU--------------CCGUUCa-----------GCaGAGGCGC- -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.