miRNA display CGI


Results 1 - 20 of 22 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
22591 3' -61.3 NC_005091.1 + 19551 0.66 0.416054
Target:  5'- aGGGCacGCCGC--AGGCCGucGUguucgGCg -3'
miRNA:   3'- gCCCGa-CGGCGagUCCGGCuuCGa----CG- -5'
22591 3' -61.3 NC_005091.1 + 29620 0.66 0.407052
Target:  5'- gCGGGCgaGCgGga-GGGCCGuacGCUGCg -3'
miRNA:   3'- -GCCCGa-CGgCgagUCCGGCuu-CGACG- -5'
22591 3' -61.3 NC_005091.1 + 49893 0.66 0.38942
Target:  5'- gCGGuGCggUGCCGauaugCAGGCCGAcgguAGC-GCg -3'
miRNA:   3'- -GCC-CG--ACGGCga---GUCCGGCU----UCGaCG- -5'
22591 3' -61.3 NC_005091.1 + 31690 0.67 0.347587
Target:  5'- cCGGGUgcgauaccguaGCCGCgccGGCCGccuucGGCUGCg -3'
miRNA:   3'- -GCCCGa----------CGGCGaguCCGGCu----UCGACG- -5'
22591 3' -61.3 NC_005091.1 + 15528 0.67 0.339615
Target:  5'- aCGGGCcGCCGCUCAGauugucagucaCCGcAAuCUGCa -3'
miRNA:   3'- -GCCCGaCGGCGAGUCc----------GGC-UUcGACG- -5'
22591 3' -61.3 NC_005091.1 + 22197 0.67 0.339615
Target:  5'- -uGGCUGCCGUccCAugcGGCCGAuaugcAGCUcGCg -3'
miRNA:   3'- gcCCGACGGCGa-GU---CCGGCU-----UCGA-CG- -5'
22591 3' -61.3 NC_005091.1 + 16119 0.67 0.339615
Target:  5'- uGGGUugUGCCGC-C-GGCCGGcGGCaGCa -3'
miRNA:   3'- gCCCG--ACGGCGaGuCCGGCU-UCGaCG- -5'
22591 3' -61.3 NC_005091.1 + 4343 0.69 0.280657
Target:  5'- uGGGCgUGcCCGCUCGaccuGCCuaccAAGCUGCa -3'
miRNA:   3'- gCCCG-AC-GGCGAGUc---CGGc---UUCGACG- -5'
22591 3' -61.3 NC_005091.1 + 16624 0.69 0.278612
Target:  5'- gGGGCUGgacuccuguugcgaCCgGCUCGGGuauccCCGAAGCgccgGCa -3'
miRNA:   3'- gCCCGAC--------------GG-CGAGUCC-----GGCUUCGa---CG- -5'
22591 3' -61.3 NC_005091.1 + 25214 0.69 0.273887
Target:  5'- gGGGCgGCCGCUgCaccgGGGUCGAugcAGCcgGCg -3'
miRNA:   3'- gCCCGaCGGCGA-G----UCCGGCU---UCGa-CG- -5'
22591 3' -61.3 NC_005091.1 + 14514 0.69 0.248112
Target:  5'- cCGGuaaGCgUGCCGCUCGauGCCGggGCgacgGCu -3'
miRNA:   3'- -GCC---CG-ACGGCGAGUc-CGGCuuCGa---CG- -5'
22591 3' -61.3 NC_005091.1 + 6622 0.7 0.235994
Target:  5'- cCGGGCUGCCggcGUUCAuGCCcGAGC-GCg -3'
miRNA:   3'- -GCCCGACGG---CGAGUcCGGcUUCGaCG- -5'
22591 3' -61.3 NC_005091.1 + 12967 0.7 0.230124
Target:  5'- uGGGCcacgGUCGUcCGGGCCG-AGCgGCg -3'
miRNA:   3'- gCCCGa---CGGCGaGUCCGGCuUCGaCG- -5'
22591 3' -61.3 NC_005091.1 + 11400 0.7 0.230124
Target:  5'- aCGcGGCaGCCGCUCaacaAGGCguUGAAGCcGCg -3'
miRNA:   3'- -GC-CCGaCGGCGAG----UCCG--GCUUCGaCG- -5'
22591 3' -61.3 NC_005091.1 + 2800 0.7 0.226661
Target:  5'- uCGGGCUGCCGUucgcgagagauaucgUcCGGGUcaucggCGAAGCUGa -3'
miRNA:   3'- -GCCCGACGGCG---------------A-GUCCG------GCUUCGACg -5'
22591 3' -61.3 NC_005091.1 + 10966 0.7 0.224377
Target:  5'- -aGGCcgGCCGC-CGGGUCG-AGCUGUu -3'
miRNA:   3'- gcCCGa-CGGCGaGUCCGGCuUCGACG- -5'
22591 3' -61.3 NC_005091.1 + 19538 0.7 0.224377
Target:  5'- -cGGUUGCUGCgcuuUCGGGCCGAGcGCcGCc -3'
miRNA:   3'- gcCCGACGGCG----AGUCCGGCUU-CGaCG- -5'
22591 3' -61.3 NC_005091.1 + 44493 0.7 0.210004
Target:  5'- cCGGGCUucuucGCUGCacgucgagacgauauUaCAGGCCGucGCUGCc -3'
miRNA:   3'- -GCCCGA-----CGGCG---------------A-GUCCGGCuuCGACG- -5'
22591 3' -61.3 NC_005091.1 + 718 0.72 0.156048
Target:  5'- cCGGGCUGCUGCgUgAGGUCG-AGC-GCc -3'
miRNA:   3'- -GCCCGACGGCG-AgUCCGGCuUCGaCG- -5'
22591 3' -61.3 NC_005091.1 + 26422 0.76 0.085303
Target:  5'- gGGGCUGCCaucguagcggccggGCgcgagCAGGCCGccagagAGGCUGCu -3'
miRNA:   3'- gCCCGACGG--------------CGa----GUCCGGC------UUCGACG- -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.