miRNA display CGI


Results 1 - 20 of 42 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
26634 3' -57.8 NC_005808.1 + 5587 0.72 0.220267
Target:  5'- gGCCGCcaccgugUCGAuguCCGCCUCGUUGGUa- -3'
miRNA:   3'- -UGGCGaa-----AGCU---GGCGGAGUAGCCGgu -5'
26634 3' -57.8 NC_005808.1 + 29559 0.66 0.468017
Target:  5'- cGCCGUgcUCGGgguaUCGCgUCAggUCGGCCGc -3'
miRNA:   3'- -UGGCGaaAGCU----GGCGgAGU--AGCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 3764 0.67 0.448082
Target:  5'- cGCCGCUg--GACguaGCCUCGgUCGuGCCGa -3'
miRNA:   3'- -UGGCGAaagCUGg--CGGAGU-AGC-CGGU- -5'
26634 3' -57.8 NC_005808.1 + 15690 0.67 0.438292
Target:  5'- gGCCGCUaUCGAcgaagaaggcguCCGCCUgggCAUCgaacuggcgcgaGGCCAu -3'
miRNA:   3'- -UGGCGAaAGCU------------GGCGGA---GUAG------------CCGGU- -5'
26634 3' -57.8 NC_005808.1 + 1464 0.67 0.438292
Target:  5'- -gCGCggUCGGCgGCCUCcuggcaGGCCGg -3'
miRNA:   3'- ugGCGaaAGCUGgCGGAGuag---CCGGU- -5'
26634 3' -57.8 NC_005808.1 + 32360 0.67 0.428626
Target:  5'- cGCUGCggUCG-CCGCCgaggCccCGGCCGc -3'
miRNA:   3'- -UGGCGaaAGCuGGCGGa---GuaGCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 36217 0.67 0.41625
Target:  5'- cGCCGCgg-CGGCCGaCCUgGUguaacccagcgcccCGGCCu -3'
miRNA:   3'- -UGGCGaaaGCUGGC-GGAgUA--------------GCCGGu -5'
26634 3' -57.8 NC_005808.1 + 8554 0.67 0.409678
Target:  5'- gGCCGCgcUCGACCucauccuggGCgUCGUaGGCCGc -3'
miRNA:   3'- -UGGCGaaAGCUGG---------CGgAGUAgCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 15590 0.67 0.409678
Target:  5'- cGCUGCggaUGcACCGCgC-CAUCGGCCAg -3'
miRNA:   3'- -UGGCGaaaGC-UGGCG-GaGUAGCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 28558 0.68 0.39126
Target:  5'- gGCCGCcggccaucgCGGCgCGCa-CGUCGGCCAc -3'
miRNA:   3'- -UGGCGaaa------GCUG-GCGgaGUAGCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 13537 0.68 0.364666
Target:  5'- cGCCGaacugUCGGCCGCCUgAcUCGGUg- -3'
miRNA:   3'- -UGGCgaa--AGCUGGCGGAgU-AGCCGgu -5'
26634 3' -57.8 NC_005808.1 + 38551 0.68 0.364666
Target:  5'- gGCCGCUggCcuGCCGCUcgCcgCGGCCGg -3'
miRNA:   3'- -UGGCGAaaGc-UGGCGGa-GuaGCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 34877 0.69 0.339348
Target:  5'- gGCCGCcgagCGugCGCUgcaguUCAUCGGCa- -3'
miRNA:   3'- -UGGCGaaa-GCugGCGG-----AGUAGCCGgu -5'
26634 3' -57.8 NC_005808.1 + 14105 0.69 0.331197
Target:  5'- aGuuGCUUcuugagguuaUCG-CCGUaCUCGUCGGCCAg -3'
miRNA:   3'- -UggCGAA----------AGCuGGCG-GAGUAGCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 19616 0.69 0.331197
Target:  5'- uGCCGUccggggUCaugcgGGCCGCgaCAUCGGCCAg -3'
miRNA:   3'- -UGGCGaa----AG-----CUGGCGgaGUAGCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 3585 0.7 0.307615
Target:  5'- cACCGauccgCGGCCGCCagUGUUGGCCGu -3'
miRNA:   3'- -UGGCgaaa-GCUGGCGGa-GUAGCCGGU- -5'
26634 3' -57.8 NC_005808.1 + 23338 0.71 0.25107
Target:  5'- aGCCGCgcaaUUCGACgGCCUCG-CcGCCGa -3'
miRNA:   3'- -UGGCGa---AAGCUGgCGGAGUaGcCGGU- -5'
26634 3' -57.8 NC_005808.1 + 22983 0.71 0.244637
Target:  5'- aGCCGgUcggaUUCGGCuuuCGCCUgGUCGGCCu -3'
miRNA:   3'- -UGGCgA----AAGCUG---GCGGAgUAGCCGGu -5'
26634 3' -57.8 NC_005808.1 + 33053 0.71 0.238342
Target:  5'- cCCGCgugcugUCGugCGCUUCAUCGGgUCGc -3'
miRNA:   3'- uGGCGaa----AGCugGCGGAGUAGCC-GGU- -5'
26634 3' -57.8 NC_005808.1 + 4886 0.72 0.220267
Target:  5'- cGCgGCga-CGGCgGCCUCGuuuUCGGCCAc -3'
miRNA:   3'- -UGgCGaaaGCUGgCGGAGU---AGCCGGU- -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.