miRNA display CGI


Results 1 - 20 of 24 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
28345 5' -57.8 NC_005946.1 + 85253 0.66 0.75955
Target:  5'- gGGGcuUGGAgGGagcuGGGGGcCAGGGGACuGAg -3'
miRNA:   3'- -CCC--ACCUgCC----CUCCU-GUCUCCUGuCU- -5'
28345 5' -57.8 NC_005946.1 + 13662 0.66 0.749936
Target:  5'- aGGaGGugGGGAucGGcuGCGGAGGcCAGGa -3'
miRNA:   3'- cCCaCCugCCCU--CC--UGUCUCCuGUCU- -5'
28345 5' -57.8 NC_005946.1 + 58212 0.67 0.720506
Target:  5'- uGGaGUGuuuguGAgGGGAGGAgAGAGGACc-- -3'
miRNA:   3'- -CC-CAC-----CUgCCCUCCUgUCUCCUGucu -5'
28345 5' -57.8 NC_005946.1 + 88134 0.67 0.720506
Target:  5'- aGGGUGGugGGGAccaaGaGACccucugccguGGAGGuuGCGGGc -3'
miRNA:   3'- -CCCACCugCCCU----C-CUG----------UCUCC--UGUCU- -5'
28345 5' -57.8 NC_005946.1 + 25352 0.67 0.69039
Target:  5'- uGG-GGAagcuccUGGGAGGACAGAuGGACu-- -3'
miRNA:   3'- cCCaCCU------GCCCUCCUGUCU-CCUGucu -5'
28345 5' -57.8 NC_005946.1 + 4289 0.68 0.680242
Target:  5'- aGGGUGGGUGuGGaAGGACAcGAGGccguCGGGg -3'
miRNA:   3'- -CCCACCUGC-CC-UCCUGU-CUCCu---GUCU- -5'
28345 5' -57.8 NC_005946.1 + 49413 0.68 0.643442
Target:  5'- gGGGUccucguaGACGGGAGGACcgccgucggaccaagAGGGGuCGGGg -3'
miRNA:   3'- -CCCAc------CUGCCCUCCUG---------------UCUCCuGUCU- -5'
28345 5' -57.8 NC_005946.1 + 102997 0.69 0.629078
Target:  5'- aGGGaGGGCcGGGA-GACAcGGGGACGGu -3'
miRNA:   3'- -CCCaCCUG-CCCUcCUGU-CUCCUGUCu -5'
28345 5' -57.8 NC_005946.1 + 79454 0.69 0.59834
Target:  5'- gGGGUGGGcCGGGuGGACGcuccuGGGCuGGAc -3'
miRNA:   3'- -CCCACCU-GCCCuCCUGUcu---CCUG-UCU- -5'
28345 5' -57.8 NC_005946.1 + 12177 0.69 0.589154
Target:  5'- cGGUGGGCaGGAGGugcguggacugggauCAGAGGACc-- -3'
miRNA:   3'- cCCACCUGcCCUCCu--------------GUCUCCUGucu -5'
28345 5' -57.8 NC_005946.1 + 35658 0.69 0.588135
Target:  5'- gGGGguuggGGACGacGAGGAUAGuguccaGGGACAGGu -3'
miRNA:   3'- -CCCa----CCUGCc-CUCCUGUC------UCCUGUCU- -5'
28345 5' -57.8 NC_005946.1 + 61636 0.7 0.567826
Target:  5'- uGG-GGGCcuuuuucggcaGGGAGGACAGcacgguGGACAGGg -3'
miRNA:   3'- cCCaCCUG-----------CCCUCCUGUCu-----CCUGUCU- -5'
28345 5' -57.8 NC_005946.1 + 36428 0.7 0.567826
Target:  5'- aGGGaggagGGACGGaaGGGGcACGGAGGgacGCGGAa -3'
miRNA:   3'- -CCCa----CCUGCC--CUCC-UGUCUCC---UGUCU- -5'
28345 5' -57.8 NC_005946.1 + 78047 0.7 0.564794
Target:  5'- aGGGUcGuACccaaucgccaccguGGGAGGGCAGAGGGuCGGAu -3'
miRNA:   3'- -CCCAcC-UG--------------CCCUCCUGUCUCCU-GUCU- -5'
28345 5' -57.8 NC_005946.1 + 12769 0.7 0.537719
Target:  5'- uGGGgGGACGGcGcugugcucAGGGCGGAGGgagGCAGGc -3'
miRNA:   3'- -CCCaCCUGCC-C--------UCCUGUCUCC---UGUCU- -5'
28345 5' -57.8 NC_005946.1 + 25775 0.7 0.527803
Target:  5'- uGGUGGACGacGAGGACGacGAGGACcaaucGGAc -3'
miRNA:   3'- cCCACCUGCc-CUCCUGU--CUCCUG-----UCU- -5'
28345 5' -57.8 NC_005946.1 + 72124 0.7 0.524841
Target:  5'- cGGUGGuggccaucaugacgGCGGGAGGcuucaaccaAGAGGACAGc -3'
miRNA:   3'- cCCACC--------------UGCCCUCCug-------UCUCCUGUCu -5'
28345 5' -57.8 NC_005946.1 + 103060 0.7 0.517955
Target:  5'- aGGGUGGAgUGGGAGc-CAGGGGGCu-- -3'
miRNA:   3'- -CCCACCU-GCCCUCcuGUCUCCUGucu -5'
28345 5' -57.8 NC_005946.1 + 13317 0.71 0.508181
Target:  5'- aGGGUGGugGccGAGGGCcugacguuuaaGGAGGugAGGc -3'
miRNA:   3'- -CCCACCugCc-CUCCUG-----------UCUCCugUCU- -5'
28345 5' -57.8 NC_005946.1 + 36251 0.71 0.469919
Target:  5'- cGGGUcuGGG-GGGAGcGGCcuuGAGGACGGAa -3'
miRNA:   3'- -CCCA--CCUgCCCUC-CUGu--CUCCUGUCU- -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.