miRNA display CGI


Results 1 - 20 of 30 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
18322 3' -58.4 NC_004681.1 + 3245 0.66 0.618413
Target:  5'- gUCCaucagGCCCuGGAGG---AGGGCGAGCCGc -3'
miRNA:   3'- -AGG-----CGGG-CCUUCgagUCCCGUUUGGU- -5'
18322 3' -58.4 NC_004681.1 + 3867 0.66 0.596159
Target:  5'- cUCCGaaCCGGuaugGGCUCAGGuGCGcgcgugcAACCAc -3'
miRNA:   3'- -AGGCg-GGCCu---UCGAGUCC-CGU-------UUGGU- -5'
18322 3' -58.4 NC_004681.1 + 6784 0.66 0.585602
Target:  5'- uUCCGCUCGGccagugcGAGCUgCAcGGCGAGCa- -3'
miRNA:   3'- -AGGCGGGCC-------UUCGA-GUcCCGUUUGgu -5'
18322 3' -58.4 NC_004681.1 + 14443 0.69 0.44551
Target:  5'- gCCGCCCGcGAGGC--GGaGGCGAacGCCGc -3'
miRNA:   3'- aGGCGGGC-CUUCGagUC-CCGUU--UGGU- -5'
18322 3' -58.4 NC_004681.1 + 16605 0.66 0.639654
Target:  5'- cCCGCCaucuGGGAGUUCcaguugccGGGGCGcggcGCCGa -3'
miRNA:   3'- aGGCGGg---CCUUCGAG--------UCCCGUu---UGGU- -5'
18322 3' -58.4 NC_004681.1 + 17597 0.66 0.618413
Target:  5'- gCCGUgguaUCGGcGGCUCGGGcGCGGACg- -3'
miRNA:   3'- aGGCG----GGCCuUCGAGUCC-CGUUUGgu -5'
18322 3' -58.4 NC_004681.1 + 19017 0.66 0.629032
Target:  5'- cCCGCgaCGGGAGCcUGGGGaCcGGCCAg -3'
miRNA:   3'- aGGCGg-GCCUUCGaGUCCC-GuUUGGU- -5'
18322 3' -58.4 NC_004681.1 + 21950 0.67 0.524288
Target:  5'- -aUGCCCG--AGCgaAGGGCGAACCAu -3'
miRNA:   3'- agGCGGGCcuUCGagUCCCGUUUGGU- -5'
18322 3' -58.4 NC_004681.1 + 22294 0.7 0.373794
Target:  5'- cCUGCCCGucauGGCgCAGGGUGAGCCc -3'
miRNA:   3'- aGGCGGGCcu--UCGaGUCCCGUUUGGu -5'
18322 3' -58.4 NC_004681.1 + 25817 0.66 0.639654
Target:  5'- aCCGCCaccgCGGu-GCUCAuGGCAAuCCAg -3'
miRNA:   3'- aGGCGG----GCCuuCGAGUcCCGUUuGGU- -5'
18322 3' -58.4 NC_004681.1 + 27456 0.66 0.618413
Target:  5'- uUCCGCCguugaGGGucAGCUCgaaugGGGGCGguguGACCu -3'
miRNA:   3'- -AGGCGGg----CCU--UCGAG-----UCCCGU----UUGGu -5'
18322 3' -58.4 NC_004681.1 + 28483 0.72 0.288731
Target:  5'- cCCGCCCGGGgcugGGCUCAcacucaccccGGGCAcccCCGc -3'
miRNA:   3'- aGGCGGGCCU----UCGAGU----------CCCGUuu-GGU- -5'
18322 3' -58.4 NC_004681.1 + 28507 0.67 0.555216
Target:  5'- cUCCGC--GGGAGC-CGGGGUGAccGCCAg -3'
miRNA:   3'- -AGGCGggCCUUCGaGUCCCGUU--UGGU- -5'
18322 3' -58.4 NC_004681.1 + 30337 0.66 0.639654
Target:  5'- uUCgGCUCGGggGCUUucgcauuGGGgGAACa- -3'
miRNA:   3'- -AGgCGGGCCuuCGAGu------CCCgUUUGgu -5'
18322 3' -58.4 NC_004681.1 + 34746 0.68 0.514122
Target:  5'- gCCGCCCcuugucGAAGUagGGGGCAAgaagcuccGCCAa -3'
miRNA:   3'- aGGCGGGc-----CUUCGagUCCCGUU--------UGGU- -5'
18322 3' -58.4 NC_004681.1 + 36889 0.66 0.607805
Target:  5'- aCUGCCUaGucAGCggGGGGCGGGCCAg -3'
miRNA:   3'- aGGCGGGcCu-UCGagUCCCGUUUGGU- -5'
18322 3' -58.4 NC_004681.1 + 40136 0.69 0.436125
Target:  5'- aCCGCCCGGGA---CAGG-CAGGCCGc -3'
miRNA:   3'- aGGCGGGCCUUcgaGUCCcGUUUGGU- -5'
18322 3' -58.4 NC_004681.1 + 44796 0.69 0.44551
Target:  5'- aCCGCCCuGGAGGU---GGGCAaGACCu -3'
miRNA:   3'- aGGCGGG-CCUUCGaguCCCGU-UUGGu -5'
18322 3' -58.4 NC_004681.1 + 48039 0.7 0.399762
Target:  5'- cCCGCCUGGggGCUCuGGau--GCCu -3'
miRNA:   3'- aGGCGGGCCuuCGAGuCCcguuUGGu -5'
18322 3' -58.4 NC_004681.1 + 48780 0.67 0.575081
Target:  5'- cUCgGCCCauGGGAGCUggcccgcCAGGGUucccGCCAg -3'
miRNA:   3'- -AGgCGGG--CCUUCGA-------GUCCCGuu--UGGU- -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.