miRNA display CGI


Results 1 - 20 of 68 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
14209 3' -59.3 NC_003521.1 + 233488 0.67 0.815866
Target:  5'- cUGGCCUGGAUcugguucccGAGCCUgugCCUUCUGCu -3'
miRNA:   3'- cGCCGGGCCUA---------CUUGGG---GGAGGAUGu -5'
14209 3' -59.3 NC_003521.1 + 203433 0.68 0.755221
Target:  5'- -aGGCCCGGGc--GCCCCCgccgCCUcgaACAc -3'
miRNA:   3'- cgCCGGGCCUacuUGGGGGa---GGA---UGU- -5'
14209 3' -59.3 NC_003521.1 + 168751 0.68 0.764238
Target:  5'- aCGGCCUGG-UGGuCCgCCUCCUGuCGg -3'
miRNA:   3'- cGCCGGGCCuACUuGGgGGAGGAU-GU- -5'
14209 3' -59.3 NC_003521.1 + 62795 0.68 0.770487
Target:  5'- -gGGCCCGGcgucuuugacgaccGUGGccGCCUCCgUCCUACc -3'
miRNA:   3'- cgCCGGGCC--------------UACU--UGGGGG-AGGAUGu -5'
14209 3' -59.3 NC_003521.1 + 85339 0.68 0.770487
Target:  5'- cGCGGCCCGccgcaGGccggcgucucucucACCCCCUCCUu-- -3'
miRNA:   3'- -CGCCGGGCcua--CU--------------UGGGGGAGGAugu -5'
14209 3' -59.3 NC_003521.1 + 32744 0.68 0.790627
Target:  5'- aGCGGgCgCGGAgGAACCUCCUUCUc-- -3'
miRNA:   3'- -CGCCgG-GCCUaCUUGGGGGAGGAugu -5'
14209 3' -59.3 NC_003521.1 + 4373 0.68 0.794063
Target:  5'- cGCGGCCCGcgucccgcucGcucacucacccgcucGUGGACCUCCUCCUc-- -3'
miRNA:   3'- -CGCCGGGC----------C---------------UACUUGGGGGAGGAugu -5'
14209 3' -59.3 NC_003521.1 + 221848 0.68 0.799177
Target:  5'- cGCGGCgCGuccucGACCCCCUCCU-CGu -3'
miRNA:   3'- -CGCCGgGCcuac-UUGGGGGAGGAuGU- -5'
14209 3' -59.3 NC_003521.1 + 106950 0.67 0.815046
Target:  5'- cGCGGCCUGG-UGGACUCUCaucaaucucuuuaUCCUGg- -3'
miRNA:   3'- -CGCCGGGCCuACUUGGGGG-------------AGGAUgu -5'
14209 3' -59.3 NC_003521.1 + 75548 0.69 0.746107
Target:  5'- aGCGGCgCCGGcgGcggcuacgccAGCgCCCUCCUGu- -3'
miRNA:   3'- -CGCCG-GGCCuaC----------UUGgGGGAGGAUgu -5'
14209 3' -59.3 NC_003521.1 + 47577 0.69 0.746107
Target:  5'- aGCgGGCCaCGGuggcggucgGAGuCCUCCUCCUGCu -3'
miRNA:   3'- -CG-CCGG-GCCua-------CUU-GGGGGAGGAUGu -5'
14209 3' -59.3 NC_003521.1 + 92103 0.69 0.736904
Target:  5'- gGCGGugcCCCGGGUcgGAACCCCCgggUGCGg -3'
miRNA:   3'- -CGCC---GGGCCUA--CUUGGGGGaggAUGU- -5'
14209 3' -59.3 NC_003521.1 + 137347 0.74 0.472203
Target:  5'- cGCgGGCCCGcugGAGCCgCCCUCCcGCAu -3'
miRNA:   3'- -CG-CCGGGCcuaCUUGG-GGGAGGaUGU- -5'
14209 3' -59.3 NC_003521.1 + 90136 0.72 0.536205
Target:  5'- gGCGGaucccagcCCCGGAuacUGAuacGCCCCCUUCUugAa -3'
miRNA:   3'- -CGCC--------GGGCCU---ACU---UGGGGGAGGAugU- -5'
14209 3' -59.3 NC_003521.1 + 54503 0.7 0.64166
Target:  5'- gGCGGCCCGGcGUGGACCaggaUCUGCAc -3'
miRNA:   3'- -CGCCGGGCC-UACUUGGgggaGGAUGU- -5'
14209 3' -59.3 NC_003521.1 + 141311 0.7 0.660994
Target:  5'- gGCGGCgccCCGGA---GCCCUCUUCUGCu -3'
miRNA:   3'- -CGCCG---GGCCUacuUGGGGGAGGAUGu -5'
14209 3' -59.3 NC_003521.1 + 49813 0.7 0.689821
Target:  5'- -aGGCCUGGAUGAggcuGCCCacguCCaCCUGCGc -3'
miRNA:   3'- cgCCGGGCCUACU----UGGG----GGaGGAUGU- -5'
14209 3' -59.3 NC_003521.1 + 138850 0.69 0.718261
Target:  5'- uGCGGCCa-GAUGGGCUgcaCCUUCUGCGu -3'
miRNA:   3'- -CGCCGGgcCUACUUGGg--GGAGGAUGU- -5'
14209 3' -59.3 NC_003521.1 + 202653 0.69 0.72762
Target:  5'- aGCGGCCCcGcugGGACgCCCUgcaCCUACAc -3'
miRNA:   3'- -CGCCGGGcCua-CUUGgGGGA---GGAUGU- -5'
14209 3' -59.3 NC_003521.1 + 64770 0.69 0.736904
Target:  5'- cGCGGCaCCGGgcGAuCCCaagcgCCUGCAg -3'
miRNA:   3'- -CGCCG-GGCCuaCUuGGGgga--GGAUGU- -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.