miRNA display CGI


Results 1 - 20 of 26 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
18326 3' -57.2 NC_004681.1 + 40851 0.66 0.700597
Target:  5'- cACAGCggaggaGCGUCcUCGCGGUacAAGGUGg -3'
miRNA:   3'- -UGUCGa-----CGCAGaGGUGCCAc-UUCCGC- -5'
18326 3' -57.2 NC_004681.1 + 60932 0.66 0.69009
Target:  5'- -gGGCaGCGgaaCCACaGUGGAGGCGu -3'
miRNA:   3'- ugUCGaCGCagaGGUGcCACUUCCGC- -5'
18326 3' -57.2 NC_004681.1 + 60359 0.66 0.668929
Target:  5'- -uGGUUGCGcguaagccUCUCgugggCACGGUGgcGGCGa -3'
miRNA:   3'- ugUCGACGC--------AGAG-----GUGCCACuuCCGC- -5'
18326 3' -57.2 NC_004681.1 + 16156 0.66 0.658295
Target:  5'- gGCAGuCUGCGUUgcggcggaUGCGGUGAcagcGGCGg -3'
miRNA:   3'- -UGUC-GACGCAGag------GUGCCACUu---CCGC- -5'
18326 3' -57.2 NC_004681.1 + 12777 0.67 0.647639
Target:  5'- uACGGUUGag-CUCCGCGGcggugaUGggGGUGc -3'
miRNA:   3'- -UGUCGACgcaGAGGUGCC------ACuuCCGC- -5'
18326 3' -57.2 NC_004681.1 + 26920 0.67 0.626294
Target:  5'- cACAGCgGCGaCUCggcaUACGGUGGuAGGCc -3'
miRNA:   3'- -UGUCGaCGCaGAG----GUGCCACU-UCCGc -5'
18326 3' -57.2 NC_004681.1 + 61768 0.67 0.626294
Target:  5'- uCGGCgGCGgcCUCCGCGGcGgcGGCu -3'
miRNA:   3'- uGUCGaCGCa-GAGGUGCCaCuuCCGc -5'
18326 3' -57.2 NC_004681.1 + 35376 0.67 0.612426
Target:  5'- --cGCUGCGUCcaagCCAcCGGUGGccggauuccucgacGGGCa -3'
miRNA:   3'- uguCGACGCAGa---GGU-GCCACU--------------UCCGc -5'
18326 3' -57.2 NC_004681.1 + 28405 0.68 0.594335
Target:  5'- cACGauggGCGUCcCCAUGGUGAGGGUc -3'
miRNA:   3'- -UGUcga-CGCAGaGGUGCCACUUCCGc -5'
18326 3' -57.2 NC_004681.1 + 49818 0.68 0.594335
Target:  5'- -uGGCUGCG-CUUCuuGCGGUGGuggaGGGUGa -3'
miRNA:   3'- ugUCGACGCaGAGG--UGCCACU----UCCGC- -5'
18326 3' -57.2 NC_004681.1 + 16120 0.68 0.552177
Target:  5'- cACGGCUGUGUCggguaucggcUUCGCGGcGcuGGCGg -3'
miRNA:   3'- -UGUCGACGCAG----------AGGUGCCaCuuCCGC- -5'
18326 3' -57.2 NC_004681.1 + 49968 0.68 0.541768
Target:  5'- aGCAGUgGCGUUUCUGCGG-GGuucugccagGGGCGg -3'
miRNA:   3'- -UGUCGaCGCAGAGGUGCCaCU---------UCCGC- -5'
18326 3' -57.2 NC_004681.1 + 61380 0.69 0.521156
Target:  5'- aACAGCUcGCGUgUCCAaGGUcGgcGGCa -3'
miRNA:   3'- -UGUCGA-CGCAgAGGUgCCA-CuuCCGc -5'
18326 3' -57.2 NC_004681.1 + 62932 0.69 0.510965
Target:  5'- -aGGCUGUGgucgacuccaUCUCCuucgGCGGUGguGGCGg -3'
miRNA:   3'- ugUCGACGC----------AGAGG----UGCCACuuCCGC- -5'
18326 3' -57.2 NC_004681.1 + 58526 0.69 0.510965
Target:  5'- cCGGUcuugGCGUCggCCGCGGaGAAGGUGc -3'
miRNA:   3'- uGUCGa---CGCAGa-GGUGCCaCUUCCGC- -5'
18326 3' -57.2 NC_004681.1 + 67823 0.69 0.500857
Target:  5'- gACAGCgucgUGCGUCaucUCCGCGGc-GAGGCu -3'
miRNA:   3'- -UGUCG----ACGCAG---AGGUGCCacUUCCGc -5'
18326 3' -57.2 NC_004681.1 + 14480 0.69 0.500857
Target:  5'- uCGGCgaUGCGguUCUCCGCGGcGAucaugcGGGCGg -3'
miRNA:   3'- uGUCG--ACGC--AGAGGUGCCaCU------UCCGC- -5'
18326 3' -57.2 NC_004681.1 + 12896 0.7 0.461365
Target:  5'- uGCAGCUGCGUCggUCGCcGUGAgaacGGaGCGa -3'
miRNA:   3'- -UGUCGACGCAGa-GGUGcCACU----UC-CGC- -5'
18326 3' -57.2 NC_004681.1 + 7552 0.7 0.442243
Target:  5'- -gGGaCUGuCGUCUaCACGGUGGAGGaCGg -3'
miRNA:   3'- ugUC-GAC-GCAGAgGUGCCACUUCC-GC- -5'
18326 3' -57.2 NC_004681.1 + 12499 0.7 0.442243
Target:  5'- cCGGCUcaccgacgaGCGUCgCCGCGGUGguGGUGc -3'
miRNA:   3'- uGUCGA---------CGCAGaGGUGCCACuuCCGC- -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.