miRNA display CGI


Results 1 - 20 of 24 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
28387 3' -55.8 NC_005946.1 + 67926 0.66 0.884388
Target:  5'- cUCUCGUUGggguacugcuGCaCGGCGUAGCCCcucucggcCAGGa -3'
miRNA:   3'- -AGGGCAAC----------UG-GCUGCGUUGGGa-------GUCC- -5'
28387 3' -55.8 NC_005946.1 + 31682 0.66 0.877253
Target:  5'- uUCCUcacGGCCaccacgGACGUggAACCCUCAGGc -3'
miRNA:   3'- -AGGGcaaCUGG------CUGCG--UUGGGAGUCC- -5'
28387 3' -55.8 NC_005946.1 + 41412 0.66 0.862318
Target:  5'- gUCCCGgcgGACCGuccucucCGUcccuGCCCccgUCAGGg -3'
miRNA:   3'- -AGGGCaa-CUGGCu------GCGu---UGGG---AGUCC- -5'
28387 3' -55.8 NC_005946.1 + 76565 0.66 0.862318
Target:  5'- gCCCGUggGAgCGGC-UGGgCCUCAGGg -3'
miRNA:   3'- aGGGCAa-CUgGCUGcGUUgGGAGUCC- -5'
28387 3' -55.8 NC_005946.1 + 15017 0.66 0.862318
Target:  5'- cCCCGUcaaGAcuccuCCGACcCAGCCCUCAa- -3'
miRNA:   3'- aGGGCAa--CU-----GGCUGcGUUGGGAGUcc -5'
28387 3' -55.8 NC_005946.1 + 47686 0.67 0.846533
Target:  5'- aUCCCGUccaGCCuGACGCugacAACCCUCcccaucuccaccAGGg -3'
miRNA:   3'- -AGGGCAac-UGG-CUGCG----UUGGGAG------------UCC- -5'
28387 3' -55.8 NC_005946.1 + 42318 0.67 0.838339
Target:  5'- cCCCGccUUGGCCuaccugaccccuGGgGCccuuugGACCCUCAGGa -3'
miRNA:   3'- aGGGC--AACUGG------------CUgCG------UUGGGAGUCC- -5'
28387 3' -55.8 NC_005946.1 + 89197 0.67 0.8274
Target:  5'- uUCCCGgaGGCCuguacagccucugcuCGCAcAUCCUCAGGc -3'
miRNA:   3'- -AGGGCaaCUGGcu-------------GCGU-UGGGAGUCC- -5'
28387 3' -55.8 NC_005946.1 + 20879 0.68 0.776059
Target:  5'- cCCUGgagcaGGCCGcCGCGgugGCCCUgAGGg -3'
miRNA:   3'- aGGGCaa---CUGGCuGCGU---UGGGAgUCC- -5'
28387 3' -55.8 NC_005946.1 + 59978 0.68 0.776059
Target:  5'- gCCCGcgUaACCGuACGCGGCCCUgGGu -3'
miRNA:   3'- aGGGCa-AcUGGC-UGCGUUGGGAgUCc -5'
28387 3' -55.8 NC_005946.1 + 103111 0.68 0.766562
Target:  5'- gUCCGgcagGACCGcCGgGACCCagGGGa -3'
miRNA:   3'- aGGGCaa--CUGGCuGCgUUGGGagUCC- -5'
28387 3' -55.8 NC_005946.1 + 11101 0.68 0.756943
Target:  5'- gCUCGUacgccucuuuuUGGCCGcCGcCAGCCC-CAGGg -3'
miRNA:   3'- aGGGCA-----------ACUGGCuGC-GUUGGGaGUCC- -5'
28387 3' -55.8 NC_005946.1 + 92448 0.68 0.756943
Target:  5'- cCCUGUUGuCgGAuuucuuUGCGGCCCUCuGGa -3'
miRNA:   3'- aGGGCAACuGgCU------GCGUUGGGAGuCC- -5'
28387 3' -55.8 NC_005946.1 + 72751 0.68 0.756943
Target:  5'- cUCCCGccaGGCUGGCGUggUCCggcgcugCGGGg -3'
miRNA:   3'- -AGGGCaa-CUGGCUGCGuuGGGa------GUCC- -5'
28387 3' -55.8 NC_005946.1 + 71813 0.69 0.737376
Target:  5'- gUCCCGcggGACUG-UGCGacGCCCUguGGa -3'
miRNA:   3'- -AGGGCaa-CUGGCuGCGU--UGGGAguCC- -5'
28387 3' -55.8 NC_005946.1 + 101468 0.69 0.697194
Target:  5'- cCCCGggaaGACgGGacucagcaGCAACCCUCAGa -3'
miRNA:   3'- aGGGCaa--CUGgCUg-------CGUUGGGAGUCc -5'
28387 3' -55.8 NC_005946.1 + 48555 0.7 0.680837
Target:  5'- aCCgCGUUGACCGGggucucugguacuccCGUggUCCUCAGc -3'
miRNA:   3'- aGG-GCAACUGGCU---------------GCGuuGGGAGUCc -5'
28387 3' -55.8 NC_005946.1 + 42376 0.7 0.67673
Target:  5'- cUCCCGg-GACCaACGgGACCCUUuGGg -3'
miRNA:   3'- -AGGGCaaCUGGcUGCgUUGGGAGuCC- -5'
28387 3' -55.8 NC_005946.1 + 41486 0.7 0.666438
Target:  5'- gCCaCGggGACCcGCGUcACCCUUGGGa -3'
miRNA:   3'- aGG-GCaaCUGGcUGCGuUGGGAGUCC- -5'
28387 3' -55.8 NC_005946.1 + 104397 0.71 0.624035
Target:  5'- cCCUGUUGucuacucccaCGGCGUccgcggcGGCCCUCAGGg -3'
miRNA:   3'- aGGGCAACug--------GCUGCG-------UUGGGAGUCC- -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.