miRNA display CGI


Results 1 - 20 of 27 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
28207 3' -52.9 NC_005891.1 + 29279 0.98 0.008007
Target:  5'- aGGGUGUCGACGUCGACACCCUAg--- -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGGGAUgaau -5'
28207 3' -52.9 NC_005891.1 + 10513 0.66 0.775524
Target:  5'- cGGUGUCGGCGUCuccuuuGgAgCCUGCUc- -3'
miRNA:   3'- cCCACAGCUGCAGc-----UgUgGGAUGAau -5'
28207 3' -52.9 NC_005891.1 + 29606 0.66 0.775524
Target:  5'- uGGGUGUUGAgGcguuUCGACACUUUgauuugcgACUUAg -3'
miRNA:   3'- -CCCACAGCUgC----AGCUGUGGGA--------UGAAU- -5'
28207 3' -52.9 NC_005891.1 + 20205 0.66 0.743762
Target:  5'- cGGGUGaCGACGgucUGcCACCUUACa-- -3'
miRNA:   3'- -CCCACaGCUGCa--GCuGUGGGAUGaau -5'
28207 3' -52.9 NC_005891.1 + 14587 0.69 0.597876
Target:  5'- uGGUGUUGAgGUCGACcgcaccauugacGCCCUAg--- -3'
miRNA:   3'- cCCACAGCUgCAGCUG------------UGGGAUgaau -5'
28207 3' -52.9 NC_005891.1 + 1092 0.73 0.378699
Target:  5'- -uGUGUCGACGUCGACACUauucccgaUGCa-- -3'
miRNA:   3'- ccCACAGCUGCAGCUGUGGg-------AUGaau -5'
28207 3' -52.9 NC_005891.1 + 37918 0.74 0.318407
Target:  5'- gGGGUGuUCGAcCGUCGACACCaUugUUc -3'
miRNA:   3'- -CCCAC-AGCU-GCAGCUGUGGgAugAAu -5'
28207 3' -52.9 NC_005891.1 + 36170 0.76 0.232418
Target:  5'- -uGUGUCGACGUCGACACCgccuUUGCg-- -3'
miRNA:   3'- ccCACAGCUGCAGCUGUGG----GAUGaau -5'
28207 3' -52.9 NC_005891.1 + 33179 0.82 0.105328
Target:  5'- -uGUGUCGACGUCGACACCCa----- -3'
miRNA:   3'- ccCACAGCUGCAGCUGUGGGaugaau -5'
28207 3' -52.9 NC_005891.1 + 16833 0.85 0.059981
Target:  5'- aGGGUGUCGACGUCGACACaCCcgaacaggucgUGCUa- -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUG-GG-----------AUGAau -5'
28207 3' -52.9 NC_005891.1 + 34707 0.93 0.017262
Target:  5'- aGGGUGUCGACGUCGACACCCa----- -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGGGaugaau -5'
28207 3' -52.9 NC_005891.1 + 21747 0.93 0.017262
Target:  5'- aGGGUGUCGACGUCGACACCCa----- -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGGGaugaau -5'
28207 3' -52.9 NC_005891.1 + 24578 1 0.005532
Target:  5'- uGGGUGUCGACGUCGACACCCUAUUc- -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGGGAUGAau -5'
28207 3' -52.9 NC_005891.1 + 6989 0.76 0.232418
Target:  5'- gGGuGUGUCGACaUCGACACaCCUAUUUu -3'
miRNA:   3'- -CC-CACAGCUGcAGCUGUG-GGAUGAAu -5'
28207 3' -52.9 NC_005891.1 + 34767 1.09 0.001219
Target:  5'- uGGGUGUCGACGUCGACACCCUACUUAa -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGGGAUGAAU- -5'
28207 3' -52.9 NC_005891.1 + 21807 1.06 0.002261
Target:  5'- uGGGUGUCGACGUCGACACCCUACUg- -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGGGAUGAau -5'
28207 3' -52.9 NC_005891.1 + 29339 0.97 0.00889
Target:  5'- aGGGUGUCGACGUCGACACCCUcuuuuuacuggagagACUUAa -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGGGA---------------UGAAU- -5'
28207 3' -52.9 NC_005891.1 + 24638 0.94 0.014808
Target:  5'- aGGGUGUCGACGUCGACACCC-ACa-- -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGGGaUGaau -5'
28207 3' -52.9 NC_005891.1 + 16893 0.88 0.040539
Target:  5'- gGGuGUGUCGACGUCGACACCCUcccccucagGCUUc -3'
miRNA:   3'- -CC-CACAGCUGCAGCUGUGGGA---------UGAAu -5'
28207 3' -52.9 NC_005891.1 + 33237 0.84 0.069651
Target:  5'- uGGGUGUCGACGUCGACACaCUGgUa- -3'
miRNA:   3'- -CCCACAGCUGCAGCUGUGgGAUgAau -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.