miRNA display CGI


Results 1 - 20 of 76 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
25637 3' -51.3 NC_005337.1 + 56241 1.12 0.005729
Target:  5'- aCCACCUGACGGAGAACAACCUCUACGu -3'
miRNA:   3'- -GGUGGACUGCCUCUUGUUGGAGAUGC- -5'
25637 3' -51.3 NC_005337.1 + 75044 0.77 0.6058
Target:  5'- aCUGCUUGGCGGAGAggucgguguccGCGGCCuUCUGCa -3'
miRNA:   3'- -GGUGGACUGCCUCU-----------UGUUGG-AGAUGc -5'
25637 3' -51.3 NC_005337.1 + 95594 0.76 0.626808
Target:  5'- aCACCaGGCGGcGAACAGCgUCUGCu -3'
miRNA:   3'- gGUGGaCUGCCuCUUGUUGgAGAUGc -5'
25637 3' -51.3 NC_005337.1 + 44545 0.76 0.647832
Target:  5'- aCCGCgUGGCGGAGGGCGACagugACGa -3'
miRNA:   3'- -GGUGgACUGCCUCUUGUUGgagaUGC- -5'
25637 3' -51.3 NC_005337.1 + 24181 0.74 0.770226
Target:  5'- aCCGCCUucuACGGAGAACGcacuGCCUCacagACGc -3'
miRNA:   3'- -GGUGGAc--UGCCUCUUGU----UGGAGa---UGC- -5'
25637 3' -51.3 NC_005337.1 + 10284 0.73 0.798573
Target:  5'- aCCAuCCUGGCGGAGG--GGCCUCggaACa -3'
miRNA:   3'- -GGU-GGACUGCCUCUugUUGGAGa--UGc -5'
25637 3' -51.3 NC_005337.1 + 92686 0.73 0.816693
Target:  5'- cUCACCUuccugGGCGGc-GGCGACCUCUACa -3'
miRNA:   3'- -GGUGGA-----CUGCCucUUGUUGGAGAUGc -5'
25637 3' -51.3 NC_005337.1 + 63001 0.73 0.825492
Target:  5'- gCGCCUgaaGACGGAGGcCAugCUgUGCGa -3'
miRNA:   3'- gGUGGA---CUGCCUCUuGUugGAgAUGC- -5'
25637 3' -51.3 NC_005337.1 + 84001 0.72 0.842525
Target:  5'- -gGCCUGcACGGGGcACAcuggcGCUUCUGCGg -3'
miRNA:   3'- ggUGGAC-UGCCUCuUGU-----UGGAGAUGC- -5'
25637 3' -51.3 NC_005337.1 + 128441 0.72 0.850743
Target:  5'- cCCGCg-GGCGGccGGGuACGACCUCUGCa -3'
miRNA:   3'- -GGUGgaCUGCC--UCU-UGUUGGAGAUGc -5'
25637 3' -51.3 NC_005337.1 + 38718 0.72 0.856372
Target:  5'- gUCGuCCUGACGGGGGACAccggcgucggcaagACCUC-GCa -3'
miRNA:   3'- -GGU-GGACUGCCUCUUGU--------------UGGAGaUGc -5'
25637 3' -51.3 NC_005337.1 + 119623 0.71 0.874114
Target:  5'- gCCGCgCUGAugcCGGAGGAC-GCCUCggUGCGc -3'
miRNA:   3'- -GGUG-GACU---GCCUCUUGuUGGAG--AUGC- -5'
25637 3' -51.3 NC_005337.1 + 68116 0.71 0.874114
Target:  5'- uCCACCagcucugacgUGGCGGAGAACgGACCgUCcACGc -3'
miRNA:   3'- -GGUGG----------ACUGCCUCUUG-UUGG-AGaUGC- -5'
25637 3' -51.3 NC_005337.1 + 68221 0.71 0.888563
Target:  5'- cCCGCCUGACGGcguccggguuccGGAGCGcgGCCg--GCGc -3'
miRNA:   3'- -GGUGGACUGCC------------UCUUGU--UGGagaUGC- -5'
25637 3' -51.3 NC_005337.1 + 43002 0.71 0.895432
Target:  5'- -aACUUGGCGGAGAggAUGGCCUC-GCGc -3'
miRNA:   3'- ggUGGACUGCCUCU--UGUUGGAGaUGC- -5'
25637 3' -51.3 NC_005337.1 + 34427 0.71 0.902059
Target:  5'- aCCGCCUGGCGGGcGGcuuguCGGCCaugacgCUGCGc -3'
miRNA:   3'- -GGUGGACUGCCU-CUu----GUUGGa-----GAUGC- -5'
25637 3' -51.3 NC_005337.1 + 101523 0.71 0.902059
Target:  5'- uCCGCCUGugucuguacggaACGGAGGagcuGCAgaGCCUCaGCGu -3'
miRNA:   3'- -GGUGGAC------------UGCCUCU----UGU--UGGAGaUGC- -5'
25637 3' -51.3 NC_005337.1 + 72582 0.7 0.914571
Target:  5'- aCUACCUGACcGuGcGCcGCCUCUGCa -3'
miRNA:   3'- -GGUGGACUGcCuCuUGuUGGAGAUGc -5'
25637 3' -51.3 NC_005337.1 + 13543 0.7 0.926082
Target:  5'- aCCGCUUGACGGAGucAACGGuucuucUCUUUGCa -3'
miRNA:   3'- -GGUGGACUGCCUC--UUGUU------GGAGAUGc -5'
25637 3' -51.3 NC_005337.1 + 64147 0.7 0.931459
Target:  5'- aCCugucCCUGACGGAGGGCGGCgaggagaUGCGc -3'
miRNA:   3'- -GGu---GGACUGCCUCUUGUUGgag----AUGC- -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.