miRNA display CGI


Results 1 - 20 of 25 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
28487 3' -53 NC_005946.1 + 38198 0.66 0.95557
Target:  5'- cGGGCUgagGGACGUCggGCcccCUCUCgaCCu -3'
miRNA:   3'- -CCUGA---CCUGCAGa-CGuuuGAGAGg-GG- -5'
28487 3' -53 NC_005946.1 + 85876 0.66 0.951465
Target:  5'- cGGCgugGGACG---GCAGACgUUCCCCa -3'
miRNA:   3'- cCUGa--CCUGCagaCGUUUGaGAGGGG- -5'
28487 3' -53 NC_005946.1 + 65619 0.66 0.947113
Target:  5'- cGGGCUcGGACGgcCUGaCGGcCUCUCCg- -3'
miRNA:   3'- -CCUGA-CCUGCa-GAC-GUUuGAGAGGgg -5'
28487 3' -53 NC_005946.1 + 74148 0.66 0.942511
Target:  5'- uGAC--GACGUUUGUAAACgUCUCCaCCc -3'
miRNA:   3'- cCUGacCUGCAGACGUUUG-AGAGG-GG- -5'
28487 3' -53 NC_005946.1 + 10776 0.66 0.939629
Target:  5'- ----cGGACGUCaUGCAGGCgguccugaggaucgCUCCCa -3'
miRNA:   3'- ccugaCCUGCAG-ACGUUUGa-------------GAGGGg -5'
28487 3' -53 NC_005946.1 + 95450 0.66 0.937657
Target:  5'- uGGACUGGGCGcacagGaCAcccacAGC-CUCCCCc -3'
miRNA:   3'- -CCUGACCUGCaga--C-GU-----UUGaGAGGGG- -5'
28487 3' -53 NC_005946.1 + 36314 0.67 0.932548
Target:  5'- -aGCUGuGAUG-CUGUAGGCUUUCCUa -3'
miRNA:   3'- ccUGAC-CUGCaGACGUUUGAGAGGGg -5'
28487 3' -53 NC_005946.1 + 89288 0.67 0.927184
Target:  5'- uGGccuUUGGcccCGUCaacGCAGACUCUCCUCc -3'
miRNA:   3'- -CCu--GACCu--GCAGa--CGUUUGAGAGGGG- -5'
28487 3' -53 NC_005946.1 + 70654 0.67 0.921563
Target:  5'- uGGGCgaGGACGgCUGCGGGaUgUCCUCg -3'
miRNA:   3'- -CCUGa-CCUGCaGACGUUUgAgAGGGG- -5'
28487 3' -53 NC_005946.1 + 37553 0.67 0.921563
Target:  5'- -aGCUGGACGUCcuugacGCAGuACUCaCCCa -3'
miRNA:   3'- ccUGACCUGCAGa-----CGUU-UGAGaGGGg -5'
28487 3' -53 NC_005946.1 + 93171 0.67 0.915687
Target:  5'- aGGCUGGAgcUGUCUGCucccuACggUUCCUCg -3'
miRNA:   3'- cCUGACCU--GCAGACGuu---UGa-GAGGGG- -5'
28487 3' -53 NC_005946.1 + 35961 0.68 0.903172
Target:  5'- aGcCUGGugcCGUCUGCcaccgUCUCCCCu -3'
miRNA:   3'- cCuGACCu--GCAGACGuuug-AGAGGGG- -5'
28487 3' -53 NC_005946.1 + 80831 0.68 0.903172
Target:  5'- cGAUaUGGAUGaCUGCAAGCaaUCUCUCUa -3'
miRNA:   3'- cCUG-ACCUGCaGACGUUUG--AGAGGGG- -5'
28487 3' -53 NC_005946.1 + 23379 0.69 0.867579
Target:  5'- aGGCUGGAggUGUCUGCGggaggcaggagaAACgucCUUCCCu -3'
miRNA:   3'- cCUGACCU--GCAGACGU------------UUGa--GAGGGG- -5'
28487 3' -53 NC_005946.1 + 7708 0.69 0.835003
Target:  5'- uGGACUgGGGCGgcCUGCAccuGCUCcacaaccaugUCCCUg -3'
miRNA:   3'- -CCUGA-CCUGCa-GACGUu--UGAG----------AGGGG- -5'
28487 3' -53 NC_005946.1 + 26942 0.7 0.826345
Target:  5'- aGGGCUuGGCGUacCUGCucaguAugUCUCCCg -3'
miRNA:   3'- -CCUGAcCUGCA--GACGu----UugAGAGGGg -5'
28487 3' -53 NC_005946.1 + 66013 0.7 0.817499
Target:  5'- gGGGCUGaucugcGACGcaCUGCAGGCUCgucgUUCCCg -3'
miRNA:   3'- -CCUGAC------CUGCa-GACGUUUGAG----AGGGG- -5'
28487 3' -53 NC_005946.1 + 90479 0.7 0.808472
Target:  5'- aGGACgaGGACGUUUGCAGACaUUUauaCUCu -3'
miRNA:   3'- -CCUGa-CCUGCAGACGUUUG-AGAg--GGG- -5'
28487 3' -53 NC_005946.1 + 79651 0.7 0.799274
Target:  5'- uGGGCUccccGGACucuauccuGUCUGCcaccgcccuccaAAACUCUCCCa -3'
miRNA:   3'- -CCUGA----CCUG--------CAGACG------------UUUGAGAGGGg -5'
28487 3' -53 NC_005946.1 + 6266 0.7 0.790857
Target:  5'- -aGCUGGAacauucuguugagcaGUCUGgGcuGCUCUCCCCu -3'
miRNA:   3'- ccUGACCUg--------------CAGACgUu-UGAGAGGGG- -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.