miRNA display CGI


Results 1 - 20 of 39 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
26536 3' -54.1 NC_005357.1 + 11385 0.73 0.352576
Target:  5'- aCCUCGGUGGCGAccugaUGGg--CcAGGGUCu -3'
miRNA:   3'- -GGAGCCGCUGCU-----ACCuaaGuUCCCGG- -5'
26536 3' -54.1 NC_005357.1 + 33160 0.66 0.747038
Target:  5'- -gUgGGCGAUGGUGGAguugCGGaaguGGGCg -3'
miRNA:   3'- ggAgCCGCUGCUACCUaa--GUU----CCCGg -5'
26536 3' -54.1 NC_005357.1 + 327 0.66 0.747038
Target:  5'- aCCgucaGGCuGGCGGUGGcgUCGcgcAGcaGGCCg -3'
miRNA:   3'- -GGag--CCG-CUGCUACCuaAGU---UC--CCGG- -5'
26536 3' -54.1 NC_005357.1 + 29965 0.66 0.735383
Target:  5'- gUCgCGGCGcACGAcggccUGGAUgcagccgUCGAacGGGCCa -3'
miRNA:   3'- -GGaGCCGC-UGCU-----ACCUA-------AGUU--CCCGG- -5'
26536 3' -54.1 NC_005357.1 + 20092 0.67 0.70408
Target:  5'- uCCUUGGCGACuucGGAa--AAGGcGCCc -3'
miRNA:   3'- -GGAGCCGCUGcuaCCUaagUUCC-CGG- -5'
26536 3' -54.1 NC_005357.1 + 14815 0.67 0.671064
Target:  5'- aCCUCGGCGGCGcUGccUUCGcccAGGucgauGCCg -3'
miRNA:   3'- -GGAGCCGCUGCuACcuAAGU---UCC-----CGG- -5'
26536 3' -54.1 NC_005357.1 + 33593 0.68 0.648846
Target:  5'- aCgUCGGCGAgGAcGGuaUCAA-GGCCg -3'
miRNA:   3'- -GgAGCCGCUgCUaCCuaAGUUcCCGG- -5'
26536 3' -54.1 NC_005357.1 + 8625 0.68 0.648846
Target:  5'- uUCUCGGCcgcuGCGGUGGcgaggUCGccGGCCu -3'
miRNA:   3'- -GGAGCCGc---UGCUACCua---AGUucCCGG- -5'
26536 3' -54.1 NC_005357.1 + 683 0.68 0.637708
Target:  5'- gCCUaCGGCGGCGccGGcc----GGGCCg -3'
miRNA:   3'- -GGA-GCCGCUGCuaCCuaaguuCCCGG- -5'
26536 3' -54.1 NC_005357.1 + 23783 0.68 0.637708
Target:  5'- gCCgCGGCuACGAagaUGGAUUCcguGGuGCCg -3'
miRNA:   3'- -GGaGCCGcUGCU---ACCUAAGuu-CC-CGG- -5'
26536 3' -54.1 NC_005357.1 + 36286 0.69 0.560145
Target:  5'- --aCGGCGGCGAgUGGGUgcugauggAAGGGCa -3'
miRNA:   3'- ggaGCCGCUGCU-ACCUAag------UUCCCGg -5'
26536 3' -54.1 NC_005357.1 + 25988 0.72 0.386927
Target:  5'- uCCUCGccggucuGCGGCGuauUGGcgauUUCGAGGGCUu -3'
miRNA:   3'- -GGAGC-------CGCUGCu--ACCu---AAGUUCCCGG- -5'
26536 3' -54.1 NC_005357.1 + 22247 0.71 0.425337
Target:  5'- -gUCGGCcGCGAUGGcguAUUCGccGGCCg -3'
miRNA:   3'- ggAGCCGcUGCUACC---UAAGUucCCGG- -5'
26536 3' -54.1 NC_005357.1 + 6842 0.71 0.454838
Target:  5'- cCCUCGGCGACGGccuuUUCGuaGGCCc -3'
miRNA:   3'- -GGAGCCGCUGCUaccuAAGUucCCGG- -5'
26536 3' -54.1 NC_005357.1 + 26187 0.71 0.454838
Target:  5'- uUUCGGUGGCGAUGGcUUCGGuguaGGUCg -3'
miRNA:   3'- gGAGCCGCUGCUACCuAAGUUc---CCGG- -5'
26536 3' -54.1 NC_005357.1 + 28053 0.7 0.494773
Target:  5'- aCgUCGGCGACGGUcugcucgaacagcGGg--CAGGuGGCCg -3'
miRNA:   3'- -GgAGCCGCUGCUA-------------CCuaaGUUC-CCGG- -5'
26536 3' -54.1 NC_005357.1 + 30418 0.7 0.527617
Target:  5'- gCUCGGCauGGCGAUGagcgCGggcAGGGCCu -3'
miRNA:   3'- gGAGCCG--CUGCUACcuaaGU---UCCCGG- -5'
26536 3' -54.1 NC_005357.1 + 12544 0.69 0.549233
Target:  5'- aCCUCGGCGuCGGUGaauUUCuugccGGCCu -3'
miRNA:   3'- -GGAGCCGCuGCUACcu-AAGuuc--CCGG- -5'
26536 3' -54.1 NC_005357.1 + 39483 0.66 0.757509
Target:  5'- uUCUCGcGCuGCGAacUGGAa-CAAcGGGCCg -3'
miRNA:   3'- -GGAGC-CGcUGCU--ACCUaaGUU-CCCGG- -5'
26536 3' -54.1 NC_005357.1 + 4612 0.81 0.114692
Target:  5'- gCCUCGGCGAUGAUgucggcggGGAUgcu-GGGCCa -3'
miRNA:   3'- -GGAGCCGCUGCUA--------CCUAaguuCCCGG- -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.