miRNA display CGI


Results 1 - 18 of 18 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
18516 3' -55.7 NC_004681.1 + 8214 0.66 0.764238
Target:  5'- -------gCUGGCgGCCcuGGGCUUCCAa -3'
miRNA:   3'- acuuaaggGACCGgUGG--UCCGAAGGU- -5'
18516 3' -55.7 NC_004681.1 + 22082 0.66 0.747941
Target:  5'- gGAAUcCCCUGuggccaaguugcagcGCCGCaucaccGGCUUCCAg -3'
miRNA:   3'- aCUUAaGGGAC---------------CGGUGgu----CCGAAGGU- -5'
18516 3' -55.7 NC_004681.1 + 21271 0.66 0.743819
Target:  5'- ----cUCCCUGGCgACCcccagcccaaGGGCcUCCu -3'
miRNA:   3'- acuuaAGGGACCGgUGG----------UCCGaAGGu -5'
18516 3' -55.7 NC_004681.1 + 62547 0.66 0.712388
Target:  5'- -----cCCCUcGGCCAuUCGGGUUUCCu -3'
miRNA:   3'- acuuaaGGGA-CCGGU-GGUCCGAAGGu -5'
18516 3' -55.7 NC_004681.1 + 1533 0.67 0.680261
Target:  5'- -----cCCCUGGUgACCGGGCcagCCu -3'
miRNA:   3'- acuuaaGGGACCGgUGGUCCGaa-GGu -5'
18516 3' -55.7 NC_004681.1 + 8118 0.67 0.680261
Target:  5'- uUGGAagCCCagGGCCGCCAGcucGCaaagUCCAu -3'
miRNA:   3'- -ACUUaaGGGa-CCGGUGGUC---CGa---AGGU- -5'
18516 3' -55.7 NC_004681.1 + 59582 0.68 0.636844
Target:  5'- gGggUUCCUUGGaggauugCAcCCGGGCUUCg- -3'
miRNA:   3'- aCuuAAGGGACCg------GU-GGUCCGAAGgu -5'
18516 3' -55.7 NC_004681.1 + 39202 0.68 0.635755
Target:  5'- gGAAgguguugCCCgcgcaggUGGCCACCAgGGCUUgCAc -3'
miRNA:   3'- aCUUaa-----GGG-------ACCGGUGGU-CCGAAgGU- -5'
18516 3' -55.7 NC_004681.1 + 16384 0.68 0.625955
Target:  5'- gUGggUUgCCUcGGCCACCuccaaGGGUgaCCAg -3'
miRNA:   3'- -ACuuAAgGGA-CCGGUGG-----UCCGaaGGU- -5'
18516 3' -55.7 NC_004681.1 + 13729 0.68 0.625955
Target:  5'- ----cUCCUugauggUGGCUACCAGGUagUUCCAc -3'
miRNA:   3'- acuuaAGGG------ACCGGUGGUCCG--AAGGU- -5'
18516 3' -55.7 NC_004681.1 + 18904 0.68 0.604201
Target:  5'- gGuGUUCuaCCUGGCCGguccCCAGGCUcCCGu -3'
miRNA:   3'- aCuUAAG--GGACCGGU----GGUCCGAaGGU- -5'
18516 3' -55.7 NC_004681.1 + 32531 0.69 0.561042
Target:  5'- gUGAGUUCCUggUGGCCGCU-GGCaUCUu -3'
miRNA:   3'- -ACUUAAGGG--ACCGGUGGuCCGaAGGu -5'
18516 3' -55.7 NC_004681.1 + 15976 0.7 0.518771
Target:  5'- -----aCCCacgcGGCCGCCAGGCUccCCAc -3'
miRNA:   3'- acuuaaGGGa---CCGGUGGUCCGAa-GGU- -5'
18516 3' -55.7 NC_004681.1 + 6907 0.7 0.487912
Target:  5'- ----gUCCgUGGCCACCaccguGGGCUcguUCCAc -3'
miRNA:   3'- acuuaAGGgACCGGUGG-----UCCGA---AGGU- -5'
18516 3' -55.7 NC_004681.1 + 23012 0.71 0.457945
Target:  5'- cGggUUCCaccugaacGGCCACCAGGaagaugUCCGu -3'
miRNA:   3'- aCuuAAGGga------CCGGUGGUCCga----AGGU- -5'
18516 3' -55.7 NC_004681.1 + 14780 0.72 0.383229
Target:  5'- cGGAcgCCCUGGCCAUCcugaAGGCUggcgcCCAg -3'
miRNA:   3'- aCUUaaGGGACCGGUGG----UCCGAa----GGU- -5'
18516 3' -55.7 NC_004681.1 + 39397 0.72 0.380588
Target:  5'- aUGAAguccUCCCUGaagcgcagaGCCgacgaugcggggguGCCAGGCUUCCAc -3'
miRNA:   3'- -ACUUa---AGGGAC---------CGG--------------UGGUCCGAAGGU- -5'
18516 3' -55.7 NC_004681.1 + 63426 1.09 0.001186
Target:  5'- cUGAAUUCCCUGGCCACCAGGCUUCCAg -3'
miRNA:   3'- -ACUUAAGGGACCGGUGGUCCGAAGGU- -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.