miRNA display CGI


Results 1 - 19 of 19 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
24872 3' -50.9 NC_005284.1 + 44903 0.66 0.921558
Target:  5'- gGCGCGCUGagcuccUGC-UGUGCGGcUgCCg -3'
miRNA:   3'- -UGCGCGACaa----ACGuGCACGUUaAgGG- -5'
24872 3' -50.9 NC_005284.1 + 54688 0.66 0.915217
Target:  5'- gGCGCGCgagcggUUGCggugACGUGguGguggCCCg -3'
miRNA:   3'- -UGCGCGaca---AACG----UGCACguUaa--GGG- -5'
24872 3' -50.9 NC_005284.1 + 9101 0.66 0.90858
Target:  5'- gACGCGCgGUcgUGaagGCGUGUuccAAUUUCCa -3'
miRNA:   3'- -UGCGCGaCAa-ACg--UGCACG---UUAAGGG- -5'
24872 3' -50.9 NC_005284.1 + 6549 0.66 0.901651
Target:  5'- gGCGCGCgacagugGCugGUGCGAaggugaUCCg -3'
miRNA:   3'- -UGCGCGacaaa--CGugCACGUUa-----AGGg -5'
24872 3' -50.9 NC_005284.1 + 25542 0.66 0.894432
Target:  5'- uGCGCGCgucgcucuauUUUGaGCGUGCAuucgaUCCCg -3'
miRNA:   3'- -UGCGCGac--------AAACgUGCACGUua---AGGG- -5'
24872 3' -50.9 NC_005284.1 + 29938 0.66 0.894432
Target:  5'- uGCGUGCUgcGUUUGCccgugucuugACGgGCGAgacagcgUCCCg -3'
miRNA:   3'- -UGCGCGA--CAAACG----------UGCaCGUUa------AGGG- -5'
24872 3' -50.9 NC_005284.1 + 50215 0.66 0.894432
Target:  5'- aACGCGCacUGaUUUGCGCGcGCuuccgUCCa -3'
miRNA:   3'- -UGCGCG--AC-AAACGUGCaCGuua--AGGg -5'
24872 3' -50.9 NC_005284.1 + 43565 0.66 0.886928
Target:  5'- cACGUGCUGUcugUGCAgCGgcagagGCGAccgUCUCg -3'
miRNA:   3'- -UGCGCGACAa--ACGU-GCa-----CGUUa--AGGG- -5'
24872 3' -50.9 NC_005284.1 + 23926 0.67 0.862763
Target:  5'- gUGCGCUGcc-GCAgaUGUGCcGUUCCUu -3'
miRNA:   3'- uGCGCGACaaaCGU--GCACGuUAAGGG- -5'
24872 3' -50.9 NC_005284.1 + 40906 0.67 0.862763
Target:  5'- uCGCGUUGUaguuaUGCAC-UGCAAUUCg- -3'
miRNA:   3'- uGCGCGACAa----ACGUGcACGUUAAGgg -5'
24872 3' -50.9 NC_005284.1 + 14570 0.67 0.854181
Target:  5'- -gGCGCUGUgcgUUGCGCuugGCGAU-CUCg -3'
miRNA:   3'- ugCGCGACA---AACGUGca-CGUUAaGGG- -5'
24872 3' -50.9 NC_005284.1 + 23280 0.68 0.826974
Target:  5'- gGCGCGCgg--UGCcgauaucgGCGUGUA--UCCCg -3'
miRNA:   3'- -UGCGCGacaaACG--------UGCACGUuaAGGG- -5'
24872 3' -50.9 NC_005284.1 + 16191 0.68 0.797787
Target:  5'- -gGCGCUGggcgGCAuCGUGCAGaugCUCa -3'
miRNA:   3'- ugCGCGACaaa-CGU-GCACGUUaa-GGG- -5'
24872 3' -50.9 NC_005284.1 + 16533 0.69 0.742343
Target:  5'- gGCGCGCUGgcgGCAccaggacaaucgauCGaGCAAaUCCCu -3'
miRNA:   3'- -UGCGCGACaaaCGU--------------GCaCGUUaAGGG- -5'
24872 3' -50.9 NC_005284.1 + 12048 0.72 0.622094
Target:  5'- uCGCGCgGUUuucgGCGCGUGCGGcgaugUCUCa -3'
miRNA:   3'- uGCGCGaCAAa---CGUGCACGUUa----AGGG- -5'
24872 3' -50.9 NC_005284.1 + 31357 0.72 0.609555
Target:  5'- cACGCGCUGUcgguggccguggaUUGCAuagaacgcgcCGUcGCGGUUCCa -3'
miRNA:   3'- -UGCGCGACA-------------AACGU----------GCA-CGUUAAGGg -5'
24872 3' -50.9 NC_005284.1 + 42368 0.76 0.398837
Target:  5'- gGCGCGCUGaccgagaucccgccgUUGCGCGccgGCGAaUCCCc -3'
miRNA:   3'- -UGCGCGACa--------------AACGUGCa--CGUUaAGGG- -5'
24872 3' -50.9 NC_005284.1 + 47898 0.81 0.197133
Target:  5'- cCGCGCU---UGCGCGaGCAGUUCCCg -3'
miRNA:   3'- uGCGCGAcaaACGUGCaCGUUAAGGG- -5'
24872 3' -50.9 NC_005284.1 + 19588 1.11 0.001791
Target:  5'- cACGCGCUGUUUGCACGUGCAAUUCCCc -3'
miRNA:   3'- -UGCGCGACAAACGUGCACGUUAAGGG- -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.