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
28476 5' -57.1 NC_005946.1 + 83696 0.66 0.832922
Target:  5'- uGGGCacgGACUaGCGGcGGCuacCCUCG-GGCu -3'
miRNA:   3'- -CCUGg--CUGAaUGUC-CCG---GGAGCuCCG- -5'
28476 5' -57.1 NC_005946.1 + 65246 0.66 0.832922
Target:  5'- uGACUGccacaACUgcagACAGGGCCa-CGAGGg -3'
miRNA:   3'- cCUGGC-----UGAa---UGUCCCGGgaGCUCCg -5'
28476 5' -57.1 NC_005946.1 + 56452 0.66 0.832922
Target:  5'- --cUCGGCUcccgugaaccccUcCAGGGCCCUgGAGGg -3'
miRNA:   3'- ccuGGCUGA------------AuGUCCCGGGAgCUCCg -5'
28476 5' -57.1 NC_005946.1 + 3591 0.66 0.832084
Target:  5'- aGACC-ACguccacgccgUGCAGGGCCC-CGcacgccaGGGCg -3'
miRNA:   3'- cCUGGcUGa---------AUGUCCCGGGaGC-------UCCG- -5'
28476 5' -57.1 NC_005946.1 + 56196 0.66 0.824463
Target:  5'- uGACCGACgcaacccuCAGGGCguacaccagCCUCcuGGCg -3'
miRNA:   3'- cCUGGCUGaau-----GUCCCG---------GGAGcuCCG- -5'
28476 5' -57.1 NC_005946.1 + 1524 0.66 0.824463
Target:  5'- ---aCGGCguccGCGGcGGCCCUCaGGGCc -3'
miRNA:   3'- ccugGCUGaa--UGUC-CCGGGAGcUCCG- -5'
28476 5' -57.1 NC_005946.1 + 61171 0.66 0.819302
Target:  5'- aGGuCCGGugccucuccccucucCUUGgcUAGGGCCCUgGuGGCc -3'
miRNA:   3'- -CCuGGCU---------------GAAU--GUCCCGGGAgCuCCG- -5'
28476 5' -57.1 NC_005946.1 + 49527 0.66 0.815827
Target:  5'- cGGCCGAgUc-CAGGaGCCCgUCGuGGUa -3'
miRNA:   3'- cCUGGCUgAauGUCC-CGGG-AGCuCCG- -5'
28476 5' -57.1 NC_005946.1 + 30156 0.66 0.815827
Target:  5'- -cGCUGuCUauCAGGGCCCUCGcaauaucGGCc -3'
miRNA:   3'- ccUGGCuGAauGUCCCGGGAGCu------CCG- -5'
28476 5' -57.1 NC_005946.1 + 19822 0.67 0.779679
Target:  5'- aGGACaagaGGCUUGCGGuGcGCUCcccugCGAGGUu -3'
miRNA:   3'- -CCUGg---CUGAAUGUC-C-CGGGa----GCUCCG- -5'
28476 5' -57.1 NC_005946.1 + 47983 0.67 0.770286
Target:  5'- uGGAUgcaccucuUGGCUgcCAGGGCCCUguuggcCGGGGg -3'
miRNA:   3'- -CCUG--------GCUGAauGUCCCGGGA------GCUCCg -5'
28476 5' -57.1 NC_005946.1 + 29167 0.67 0.731557
Target:  5'- aGGAaCGGCgcaaaGGGGCCC-CGcGGGCg -3'
miRNA:   3'- -CCUgGCUGaaug-UCCCGGGaGC-UCCG- -5'
28476 5' -57.1 NC_005946.1 + 62628 0.68 0.711632
Target:  5'- uGGCCGugUUugACAGGGguaUCUUGAcGGCg -3'
miRNA:   3'- cCUGGCugAA--UGUCCCg--GGAGCU-CCG- -5'
28476 5' -57.1 NC_005946.1 + 10532 0.69 0.671035
Target:  5'- gGGACCGucaggccCAGGGgCUUCGGGGg -3'
miRNA:   3'- -CCUGGCugaau--GUCCCgGGAGCUCCg -5'
28476 5' -57.1 NC_005946.1 + 69556 0.69 0.657702
Target:  5'- uGGGCCGcg--GCGGcGGCCCacucugggaaagagUCGAGGUc -3'
miRNA:   3'- -CCUGGCugaaUGUC-CCGGG--------------AGCUCCG- -5'
28476 5' -57.1 NC_005946.1 + 69964 0.71 0.548243
Target:  5'- cGGCCGcCgc-CAGGGCCCUCGcaGCg -3'
miRNA:   3'- cCUGGCuGaauGUCCCGGGAGCucCG- -5'
28476 5' -57.1 NC_005946.1 + 38353 0.71 0.508574
Target:  5'- aGGACCGGCU----GGGCCCUgcacUGGuGGCa -3'
miRNA:   3'- -CCUGGCUGAauguCCCGGGA----GCU-CCG- -5'
28476 5' -57.1 NC_005946.1 + 45911 0.71 0.498842
Target:  5'- uGGGCCGGCc-ACGGGGCCCgcguaaccguaCGcGGCc -3'
miRNA:   3'- -CCUGGCUGaaUGUCCCGGGa----------GCuCCG- -5'
28476 5' -57.1 NC_005946.1 + 26646 0.73 0.42434
Target:  5'- aGGCCGuACUUGgAGaGGaCCCUCGcGGCg -3'
miRNA:   3'- cCUGGC-UGAAUgUC-CC-GGGAGCuCCG- -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.