Locus 6662

Sequence ID X_DroMel_CAF1
Location 16,617,849 – 16,617,959
Length 110
Max. P 0.958964
window10880 window10881

overview

Window 0

Location 16,617,849 – 16,617,959
Length 110
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 90.65
Mean single sequence MFE -33.93
Consensus MFE -28.77
Energy contribution -29.15
Covariance contribution 0.38
Combinations/Pair 1.17
Mean z-score -1.47
Structure conservation index 0.85
SVM decision value 0.18
SVM RNA-class probability 0.620480
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16617849 110 + 22224390
CUCGCAGAUCAGCCGCUUGUGCGGUACGUUUUAGGUCCACGGCAUACCUGCUGCCAUUGGUCACACUGGCAGAUUACGCGAUUAUUUU-UUUUACGGAAAGUCUGCGUUUU
..(((((((..(((((....))))).(((..(((((.........)))))((((((.((....)).)))))).....)))........-...........))))))).... ( -34.00)
>DroSim_CAF1 28032 110 + 1
CUCGCAGAUCAGCCGUUUGUGCGGUAUGUUUUAGGUGCACGGCAUACCAGCUGCCACUGGUCACACUGGCAGAUUACGCGAUUAUUUU-UUUUACGGAAAGUCUGCGUUUU
..(((((((...(((((((((.(((((((..(......)..)))))))..((((((.((....)).))))))....))))).......-....))))...))))))).... ( -37.90)
>DroEre_CAF1 29703 107 + 1
---GGAGAUCAGCCGCUUGUGCGGUACGUUUUAGGUACACCACGCACUUGCUGCCCUUGGUCACACUGGCAGAUUACGCGAUUAUUUU-UUUUACGGAAAGUCUGCGUUUU
---...(((((((.((..(((((((((.......))))....)))))..)).))...)))))......(((((((.((..(.......-..)..))...)))))))..... ( -29.70)
>DroYak_CAF1 31770 111 + 1
CUCGCAGAUCAGCCGUUUCUGCGGUACGUUUUAGGCACACGGCAUGCUUGCUGCCACUGGUCACACUGGCAGAUUACGCGAUUAUUUUUUUUUACGGAAAGUCUGCGUUUU
..(((((((...((((.((.(((........((((((.......))))))((((((.((....)).))))))....)))))............))))...))))))).... ( -34.12)
>consensus
CUCGCAGAUCAGCCGCUUGUGCGGUACGUUUUAGGUACACGGCAUACCUGCUGCCACUGGUCACACUGGCAGAUUACGCGAUUAUUUU_UUUUACGGAAAGUCUGCGUUUU
..(((((((..(((((....))))).(((..((((((.......))))))((((((.((....)).)))))).....)))....................))))))).... (-28.77 = -29.15 +   0.38)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 16,617,849 – 16,617,959
Length 110
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 90.65
Mean single sequence MFE -33.41
Consensus MFE -27.88
Energy contribution -28.44
Covariance contribution 0.56
Combinations/Pair 1.18
Mean z-score -2.41
Structure conservation index 0.83
SVM decision value 1.50
SVM RNA-class probability 0.958964
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16617849 110 - 22224390
AAAACGCAGACUUUCCGUAAAA-AAAAUAAUCGCGUAAUCUGCCAGUGUGACCAAUGGCAGCAGGUAUGCCGUGGACCUAAAACGUACCGCACAAGCGGCUGAUCUGCGAG
....((((((.(..((((....-.........(((((..((((((.((....)).))))))....))))).((((((.......)).))))....))))..).)))))).. ( -35.10)
>DroSim_CAF1 28032 110 - 1
AAAACGCAGACUUUCCGUAAAA-AAAAUAAUCGCGUAAUCUGCCAGUGUGACCAGUGGCAGCUGGUAUGCCGUGCACCUAAAACAUACCGCACAAACGGCUGAUCUGCGAG
....((((((.(..((((....-.........(((((..((((((.((....)).))))))....))))).((((..............))))..))))..).)))))).. ( -36.24)
>DroEre_CAF1 29703 107 - 1
AAAACGCAGACUUUCCGUAAAA-AAAAUAAUCGCGUAAUCUGCCAGUGUGACCAAGGGCAGCAAGUGCGUGGUGUACCUAAAACGUACCGCACAAGCGGCUGAUCUCC---
......(((......(((....-......((((((((..(((((..((....))..)))))....)))))))).........)))..((((....)))))))......--- ( -28.31)
>DroYak_CAF1 31770 111 - 1
AAAACGCAGACUUUCCGUAAAAAAAAAUAAUCGCGUAAUCUGCCAGUGUGACCAGUGGCAGCAAGCAUGCCGUGUGCCUAAAACGUACCGCAGAAACGGCUGAUCUGCGAG
....((((((.(..((((..............((.....((((((.((....)).))))))...)).(((.(.((((.......))))))))...))))..).)))))).. ( -34.00)
>consensus
AAAACGCAGACUUUCCGUAAAA_AAAAUAAUCGCGUAAUCUGCCAGUGUGACCAAUGGCAGCAAGUAUGCCGUGUACCUAAAACGUACCGCACAAACGGCUGAUCUGCGAG
....((((((.(..((((..............(((((..((((((.((....)).))))))....))))).((((..............))))..))))..).)))))).. (-27.88 = -28.44 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:28 2006