miRNA display CGI


Results 1 - 20 of 49 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
24894 3' -58.1 NC_005284.1 + 27857 0.66 0.573442
Target:  5'- -aGaCGACGCGCCGccCGGCGcaucgccgaaaUCAGUCc -3'
miRNA:   3'- ugCcGUUGCGCGGCa-GUCGC-----------AGUCAG- -5'
24894 3' -58.1 NC_005284.1 + 18105 0.66 0.573442
Target:  5'- cGCGGCGcagcaguauCGCGuuGUgAGCGUgCAGg- -3'
miRNA:   3'- -UGCCGUu--------GCGCggCAgUCGCA-GUCag -5'
24894 3' -58.1 NC_005284.1 + 8708 0.66 0.573442
Target:  5'- cACGGUGcGCGCGCuCGacgCGGCGcgCAGUUc -3'
miRNA:   3'- -UGCCGU-UGCGCG-GCa--GUCGCa-GUCAG- -5'
24894 3' -58.1 NC_005284.1 + 32962 0.66 0.563821
Target:  5'- gGCGGCGcuggaagcgccgggcACGCcgucgccaccggcuGCCGUgCAGUGUCGGa- -3'
miRNA:   3'- -UGCCGU---------------UGCG--------------CGGCA-GUCGCAGUCag -5'
24894 3' -58.1 NC_005284.1 + 1216 0.66 0.562755
Target:  5'- cCGGCAugggcGCGCGCCGgCAGCcgcUCAuGUUc -3'
miRNA:   3'- uGCCGU-----UGCGCGGCaGUCGc--AGU-CAG- -5'
24894 3' -58.1 NC_005284.1 + 37793 0.66 0.552122
Target:  5'- uCGGCGAuCGuCGCCGUguGCGcguUCGG-Cg -3'
miRNA:   3'- uGCCGUU-GC-GCGGCAguCGC---AGUCaG- -5'
24894 3' -58.1 NC_005284.1 + 19462 0.66 0.552122
Target:  5'- uGCGGCAG-GCGCUGaUCGGUG-CGGg- -3'
miRNA:   3'- -UGCCGUUgCGCGGC-AGUCGCaGUCag -5'
24894 3' -58.1 NC_005284.1 + 39297 0.66 0.552122
Target:  5'- -gGGUAACGCgacGCCGcgcUCGGCGagauacCAGUCg -3'
miRNA:   3'- ugCCGUUGCG---CGGC---AGUCGCa-----GUCAG- -5'
24894 3' -58.1 NC_005284.1 + 32800 0.66 0.541551
Target:  5'- uCGGCcuGCGCGgguugCGgggCGGCGUCGGUUa -3'
miRNA:   3'- uGCCGu-UGCGCg----GCa--GUCGCAGUCAG- -5'
24894 3' -58.1 NC_005284.1 + 38847 0.66 0.541551
Target:  5'- cCGGCGucGCGCGCCGa---CGUCAGg- -3'
miRNA:   3'- uGCCGU--UGCGCGGCagucGCAGUCag -5'
24894 3' -58.1 NC_005284.1 + 17471 0.66 0.531047
Target:  5'- cGCGGCAuuucguacugGgGCGCCGggUCGGUgGUCGcGUCg -3'
miRNA:   3'- -UGCCGU----------UgCGCGGC--AGUCG-CAGU-CAG- -5'
24894 3' -58.1 NC_005284.1 + 11596 0.66 0.520619
Target:  5'- uCGGCGacuACGCgGCCG--AGCGUCAG-Cg -3'
miRNA:   3'- uGCCGU---UGCG-CGGCagUCGCAGUCaG- -5'
24894 3' -58.1 NC_005284.1 + 21831 0.66 0.520619
Target:  5'- cCGGCGcuuccaGCGCCGcCGGCGUgGG-Cg -3'
miRNA:   3'- uGCCGUug----CGCGGCaGUCGCAgUCaG- -5'
24894 3' -58.1 NC_005284.1 + 6652 0.67 0.514401
Target:  5'- uCGGCAgaaagACGCGCCGgguuuggcgacggcCGGCGUacgGGUCc -3'
miRNA:   3'- uGCCGU-----UGCGCGGCa-------------GUCGCAg--UCAG- -5'
24894 3' -58.1 NC_005284.1 + 12151 0.67 0.510272
Target:  5'- uGCGGCaAGCGCgGCUGUCGGC-UCGa-- -3'
miRNA:   3'- -UGCCG-UUGCG-CGGCAGUCGcAGUcag -5'
24894 3' -58.1 NC_005284.1 + 30431 0.67 0.510272
Target:  5'- gACGGCGAgGUGCUGUUucGCG--AGUCg -3'
miRNA:   3'- -UGCCGUUgCGCGGCAGu-CGCagUCAG- -5'
24894 3' -58.1 NC_005284.1 + 21419 0.67 0.500011
Target:  5'- uCGGCAGCGCcgGCCGacgaacgggCGGUGUCGuUCg -3'
miRNA:   3'- uGCCGUUGCG--CGGCa--------GUCGCAGUcAG- -5'
24894 3' -58.1 NC_005284.1 + 10416 0.67 0.500011
Target:  5'- gGCGGCcgauGACGCGCaGUCGGCauaUCGGa- -3'
miRNA:   3'- -UGCCG----UUGCGCGgCAGUCGc--AGUCag -5'
24894 3' -58.1 NC_005284.1 + 50329 0.67 0.489844
Target:  5'- uUGGCGGCGUGCCG-CGGCGa----- -3'
miRNA:   3'- uGCCGUUGCGCGGCaGUCGCagucag -5'
24894 3' -58.1 NC_005284.1 + 9235 0.67 0.479773
Target:  5'- -gGGCGACGCGCCacgCGGCGgcaUAGa- -3'
miRNA:   3'- ugCCGUUGCGCGGca-GUCGCa--GUCag -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.