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
28347 5' -58 NC_005946.1 + 20782 0.66 0.77968
Target:  5'- gCUCCugGAGCaggCCUC-GGCCgUGuCCGg -3'
miRNA:   3'- gGAGGugCUCG---GGAGaCUGG-ACuGGU- -5'
28347 5' -58 NC_005946.1 + 13916 0.66 0.770286
Target:  5'- aCCUCCuCaAGCCCgacGAgCUGGCCGa -3'
miRNA:   3'- -GGAGGuGcUCGGGagaCUgGACUGGU- -5'
28347 5' -58 NC_005946.1 + 22405 0.66 0.760767
Target:  5'- gCCUCCGCG-G-CCUCUG-CCggUGACUg -3'
miRNA:   3'- -GGAGGUGCuCgGGAGACuGG--ACUGGu -5'
28347 5' -58 NC_005946.1 + 47231 0.66 0.738453
Target:  5'- aCCgUCCACGGGCuugacggaccucagCCUCUuuaGCCUGACg- -3'
miRNA:   3'- -GG-AGGUGCUCG--------------GGAGAc--UGGACUGgu -5'
28347 5' -58 NC_005946.1 + 22092 0.66 0.731557
Target:  5'- cCCUgaaCACGGGCCCUCccccuugaUGGuCCUG-CCGg -3'
miRNA:   3'- -GGAg--GUGCUCGGGAG--------ACU-GGACuGGU- -5'
28347 5' -58 NC_005946.1 + 66864 0.67 0.721634
Target:  5'- --gCCACGGugguGaCCUUCaggGACCUGACCAg -3'
miRNA:   3'- ggaGGUGCU----C-GGGAGa--CUGGACUGGU- -5'
28347 5' -58 NC_005946.1 + 104377 0.67 0.721634
Target:  5'- gCgUCCGCGgcGGCCCUCagGGCC--ACCAu -3'
miRNA:   3'- -GgAGGUGC--UCGGGAGa-CUGGacUGGU- -5'
28347 5' -58 NC_005946.1 + 35590 0.67 0.701563
Target:  5'- gCUUCCAgcaGAGCCUgagaGACCUGACaCAg -3'
miRNA:   3'- -GGAGGUg--CUCGGGaga-CUGGACUG-GU- -5'
28347 5' -58 NC_005946.1 + 74998 0.67 0.701563
Target:  5'- gCUCCAgCGcuGCCC-CUGAUgaGGCCAg -3'
miRNA:   3'- gGAGGU-GCu-CGGGaGACUGgaCUGGU- -5'
28347 5' -58 NC_005946.1 + 38745 0.68 0.660783
Target:  5'- aCCUCCugGgugaAGCCaCUCUGGCUUcagaGACUc -3'
miRNA:   3'- -GGAGGugC----UCGG-GAGACUGGA----CUGGu -5'
28347 5' -58 NC_005946.1 + 102105 0.68 0.660783
Target:  5'- -gUCCACGuAGUCCgUCagGACCUGcACCGu -3'
miRNA:   3'- ggAGGUGC-UCGGG-AGa-CUGGAC-UGGU- -5'
28347 5' -58 NC_005946.1 + 8540 0.68 0.660783
Target:  5'- aCCUCCAgGGuGCCgUCUggacccaccaccGACCUG-CCAg -3'
miRNA:   3'- -GGAGGUgCU-CGGgAGA------------CUGGACuGGU- -5'
28347 5' -58 NC_005946.1 + 81719 0.68 0.650508
Target:  5'- aCCUaCCugGAcGCCCUacc-CCUGGCCGc -3'
miRNA:   3'- -GGA-GGugCU-CGGGAgacuGGACUGGU- -5'
28347 5' -58 NC_005946.1 + 36087 0.68 0.650508
Target:  5'- cCCUCCuCGAGCUuaaacuCUCUcACCaGACCAu -3'
miRNA:   3'- -GGAGGuGCUCGG------GAGAcUGGaCUGGU- -5'
28347 5' -58 NC_005946.1 + 3352 0.68 0.609341
Target:  5'- gCCUCCAgCaGGCCCUCaUGGCCacaGCCGu -3'
miRNA:   3'- -GGAGGU-GcUCGGGAG-ACUGGac-UGGU- -5'
28347 5' -58 NC_005946.1 + 52334 0.69 0.58883
Target:  5'- --gCCugGAGCUCUUUGGCCccGCCAc -3'
miRNA:   3'- ggaGGugCUCGGGAGACUGGacUGGU- -5'
28347 5' -58 NC_005946.1 + 22281 0.7 0.548244
Target:  5'- cCCUgaaCACGGGCCCUCcccucuugaugGGCCUG-CCGg -3'
miRNA:   3'- -GGAg--GUGCUCGGGAGa----------CUGGACuGGU- -5'
28347 5' -58 NC_005946.1 + 42299 0.71 0.470167
Target:  5'- aCC-CCugGGGCCCUUUGgACCcucagGACCc -3'
miRNA:   3'- -GGaGGugCUCGGGAGAC-UGGa----CUGGu -5'
28347 5' -58 NC_005946.1 + 40050 0.71 0.451524
Target:  5'- -aUCCGCGGaucccGCUCUCUGAaCCUGACUu -3'
miRNA:   3'- ggAGGUGCU-----CGGGAGACU-GGACUGGu -5'
28347 5' -58 NC_005946.1 + 26948 0.73 0.364902
Target:  5'- gUUCCagGCGGGCuuCCUCUG-CCUGGCCAc -3'
miRNA:   3'- gGAGG--UGCUCG--GGAGACuGGACUGGU- -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.