miRNA display CGI


Results 21 - 40 of 71 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
28142 3' -54.3 NC_005887.1 + 23501 0.67 0.65676
Target:  5'- -gCGGCGGgAUGGCGGGcGGC--UGCg -3'
miRNA:   3'- caGCCGCCgUACCGCUUcUUGuaGCG- -5'
28142 3' -54.3 NC_005887.1 + 11778 0.67 0.653377
Target:  5'- cUCGGCGGCGUccucgcugcucggcGGCGucGGuuCGUaCGCu -3'
miRNA:   3'- cAGCCGCCGUA--------------CCGCuuCUu-GUA-GCG- -5'
28142 3' -54.3 NC_005887.1 + 28337 0.67 0.649993
Target:  5'- cUCGGCGuGCcgaugaugcucgucaGUGGUGAAGcGCcgcUCGCg -3'
miRNA:   3'- cAGCCGC-CG---------------UACCGCUUCuUGu--AGCG- -5'
28142 3' -54.3 NC_005887.1 + 12651 0.67 0.645479
Target:  5'- cGUC-GCGGCcgGGuCGgcGGACAccaugCGCa -3'
miRNA:   3'- -CAGcCGCCGuaCC-GCuuCUUGUa----GCG- -5'
28142 3' -54.3 NC_005887.1 + 29832 0.67 0.645479
Target:  5'- -gCGGCGcCAgaGGCGuuuGAGGAUGUCGCa -3'
miRNA:   3'- caGCCGCcGUa-CCGC---UUCUUGUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 20167 0.67 0.638703
Target:  5'- -gCGGCGGCgccguuguuuucccgAaGGUGAuuaacgGGAAUAUCGCu -3'
miRNA:   3'- caGCCGCCG---------------UaCCGCU------UCUUGUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 7376 0.67 0.637574
Target:  5'- uGUCGGCGGCGacggacGGCGAcacgacgacccacAGcgggcggccggggccGAUGUCGCg -3'
miRNA:   3'- -CAGCCGCCGUa-----CCGCU-------------UC---------------UUGUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 25515 0.67 0.634185
Target:  5'- -gCGGCGG-GUGGCGGcauaauCGUCGCc -3'
miRNA:   3'- caGCCGCCgUACCGCUucuu--GUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 15206 0.67 0.622889
Target:  5'- -aCGGCGGCAaccuGCaGgcGAugAUCGCc -3'
miRNA:   3'- caGCCGCCGUac--CG-CuuCUugUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 3036 0.67 0.622889
Target:  5'- -gCGaCGGaCGUggagucgccGGCGAGGAugGUCGCg -3'
miRNA:   3'- caGCcGCC-GUA---------CCGCUUCUugUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 39028 0.67 0.622889
Target:  5'- -aCGGCGGCuUGcuGCGGAGucagcgaacGACAUgGCg -3'
miRNA:   3'- caGCCGCCGuAC--CGCUUC---------UUGUAgCG- -5'
28142 3' -54.3 NC_005887.1 + 41050 0.67 0.622889
Target:  5'- gGUCGaGCucgagaaCAUGGCGAAGGACAcgauccgCGCg -3'
miRNA:   3'- -CAGC-CGcc-----GUACCGCUUCUUGUa------GCG- -5'
28142 3' -54.3 NC_005887.1 + 5933 0.67 0.611601
Target:  5'- uUCGGUGuGUcgGGCG-AGGugAUCGa -3'
miRNA:   3'- cAGCCGC-CGuaCCGCuUCUugUAGCg -5'
28142 3' -54.3 NC_005887.1 + 2839 0.67 0.611601
Target:  5'- --gGuGUGGCGUGGCGcAGGAUAgUGCg -3'
miRNA:   3'- cagC-CGCCGUACCGCuUCUUGUaGCG- -5'
28142 3' -54.3 NC_005887.1 + 23254 0.67 0.611601
Target:  5'- gGUCGGCGcGCAaaaGGCGcAGcuCGUgGCg -3'
miRNA:   3'- -CAGCCGC-CGUa--CCGCuUCuuGUAgCG- -5'
28142 3' -54.3 NC_005887.1 + 2219 0.67 0.611601
Target:  5'- aUgGGCGGC-UGGCGcauccggucGGAAguCGUCGCg -3'
miRNA:   3'- cAgCCGCCGuACCGCu--------UCUU--GUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 7565 0.67 0.611601
Target:  5'- -cCGGCcucguGGCA-GGCGuauccGGAcgGCAUCGCg -3'
miRNA:   3'- caGCCG-----CCGUaCCGCu----UCU--UGUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 30472 0.67 0.611601
Target:  5'- gGUgGGCgaacucGGCGUGGCGAAGuuuucagaGGCGaCGCc -3'
miRNA:   3'- -CAgCCG------CCGUACCGCUUC--------UUGUaGCG- -5'
28142 3' -54.3 NC_005887.1 + 28216 0.67 0.600333
Target:  5'- aGUCGGCGuGCGaGGUGuuGcAgGUCGCc -3'
miRNA:   3'- -CAGCCGC-CGUaCCGCuuCuUgUAGCG- -5'
28142 3' -54.3 NC_005887.1 + 30701 0.68 0.589093
Target:  5'- cUCGGCGaGCAggUGcGCGAGcAGCuuGUCGCg -3'
miRNA:   3'- cAGCCGC-CGU--AC-CGCUUcUUG--UAGCG- -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.