miRNA display CGI


Results 1 - 20 of 35 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
26290 5' -63.5 NC_005345.2 + 35942 0.66 0.324544
Target:  5'- -gCGGGGUgugCUCGCCGcgcGGGcugccgcUCGGGCc -3'
miRNA:   3'- gaGCCCCAg--GAGCGGC---UCC-------AGCCCGu -5'
26290 5' -63.5 NC_005345.2 + 1764 0.66 0.317825
Target:  5'- aUCGGcGG-CUUaCGCgCGGGGUCaGGCAg -3'
miRNA:   3'- gAGCC-CCaGGA-GCG-GCUCCAGcCCGU- -5'
26290 5' -63.5 NC_005345.2 + 9421 0.66 0.313404
Target:  5'- -gCGGGGU-CUCGCCGAcggacacauagcGGUcgcucucgugccaccCGGGCGc -3'
miRNA:   3'- gaGCCCCAgGAGCGGCU------------CCA---------------GCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 21597 0.66 0.303271
Target:  5'- -cCGGGGUCCgacgaGCCGAuGccgCGGGUg -3'
miRNA:   3'- gaGCCCCAGGag---CGGCUcCa--GCCCGu -5'
26290 5' -63.5 NC_005345.2 + 15425 0.66 0.296188
Target:  5'- gCUCGGGGaaUCC-CGaagCGGGGUC-GGCAc -3'
miRNA:   3'- -GAGCCCC--AGGaGCg--GCUCCAGcCCGU- -5'
26290 5' -63.5 NC_005345.2 + 34161 0.66 0.296188
Target:  5'- -aCGGauccgaGUCCUCgGCCGAGGgauucaaggcgcUCGGGCu -3'
miRNA:   3'- gaGCCc-----CAGGAG-CGGCUCC------------AGCCCGu -5'
26290 5' -63.5 NC_005345.2 + 21294 0.66 0.296188
Target:  5'- gUCGGGGgcgcCGCCGAGGaUCGGcCAc -3'
miRNA:   3'- gAGCCCCaggaGCGGCUCC-AGCCcGU- -5'
26290 5' -63.5 NC_005345.2 + 29584 0.66 0.296188
Target:  5'- -gCGGGGUCCUUccaGUgGuGGgagaUCGGGCGu -3'
miRNA:   3'- gaGCCCCAGGAG---CGgCuCC----AGCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 37532 0.66 0.295487
Target:  5'- gCUCGGcGGgcugugauccCCUCGCCggcaccucggcccGAGG-CGGGCGc -3'
miRNA:   3'- -GAGCC-CCa---------GGAGCGG-------------CUCCaGCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 33707 0.66 0.289235
Target:  5'- gCUCGGGGcCgUCGCgggCGAGGUguacgccaaGGGCu -3'
miRNA:   3'- -GAGCCCCaGgAGCG---GCUCCAg--------CCCGu -5'
26290 5' -63.5 NC_005345.2 + 35531 0.67 0.275714
Target:  5'- gUCcGGuUCCUCGCgGGGcUCGGGCAc -3'
miRNA:   3'- gAGcCCcAGGAGCGgCUCcAGCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 35439 0.67 0.275714
Target:  5'- gUCGGGGUCCcaugugaacUCGCCGcauucgaGGGCGa -3'
miRNA:   3'- gAGCCCCAGG---------AGCGGCuccag--CCCGU- -5'
26290 5' -63.5 NC_005345.2 + 3936 0.67 0.269145
Target:  5'- gUCGaGGUgCUCGCCGcGGccggcagccucUCGGGCGg -3'
miRNA:   3'- gAGCcCCAgGAGCGGCuCC-----------AGCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 17872 0.67 0.262703
Target:  5'- cCUCGGGGUCCgccguggcguagUCGCCGAucaCGGcGCc -3'
miRNA:   3'- -GAGCCCCAGG------------AGCGGCUccaGCC-CGu -5'
26290 5' -63.5 NC_005345.2 + 31299 0.67 0.262703
Target:  5'- -aCGGGGggaUgUCGCCGGGGcccggcggcCGGGCGg -3'
miRNA:   3'- gaGCCCCa--GgAGCGGCUCCa--------GCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 24998 0.67 0.262703
Target:  5'- gUCGaGGUgCUCGCCGcGGUCGccgaGGCGu -3'
miRNA:   3'- gAGCcCCAgGAGCGGCuCCAGC----CCGU- -5'
26290 5' -63.5 NC_005345.2 + 23671 0.67 0.26143
Target:  5'- gUCGGGGUugucgaguuccggcgUCUCGUCGAGcaugucgcccccucUCGGGCAg -3'
miRNA:   3'- gAGCCCCA---------------GGAGCGGCUCc-------------AGCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 30132 0.67 0.260161
Target:  5'- gCUCGGGcggcgacGUCgaggcgccgccccgCUCggGCCGAGGcUCGGGCAu -3'
miRNA:   3'- -GAGCCC-------CAG--------------GAG--CGGCUCC-AGCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 42370 0.68 0.244128
Target:  5'- aCUCcagccgCCacaCGCCGAGGUCGGGCAu -3'
miRNA:   3'- -GAGcccca-GGa--GCGGCUCCAGCCCGU- -5'
26290 5' -63.5 NC_005345.2 + 22782 0.68 0.244128
Target:  5'- cCUCGGGaGggauccgcgcgaUCCUCGgCGGGGggCGGGUc -3'
miRNA:   3'- -GAGCCC-C------------AGGAGCgGCUCCa-GCCCGu -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.