Locus 2912

Sequence ID	2L_DroMel_CAF1
Location	8,381,206 – 8,381,366
Length	160
Max. P	0.774882

overview

Window 0

Location	8,381,206 – 8,381,326
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.39
Mean single sequence MFE	-46.22
Consensus MFE	-32.92
Energy contribution	-33.70
Covariance contribution	0.78
Combinations/Pair	1.34
Mean z-score	-2.53
Structure conservation index	0.71
SVM decision value	0.54
SVM RNA-class probability	0.774882
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8381206 120 - 22407834
GUUCGCCAACGCCGGCAUGAAUCAGUUCAAGCCCAUUUUUCUGGGCACCGCUGAUCCCAACAGCGAAAUGUCCAAGUGGGUGCGCGUGGCCAACACGCAGAAGUGCAUUCGCGCCGGUGG
.........(((((((.(((((((.(((..(((((((....((((((.(((((.......)))))...)))))))))))))..(((((.....))))).))).)).))))).))))))). ( -55.80)
>DroVir_CAF1 2741 120 - 1
UUUUGCCAACGCCGGCAUGAAUCAAUUCAAGCCCAUUUUCCUAGGCACUGCCGAUCCCAACAGUGAGAUGGCCAAAUGGGUGCGCGUUGCGAACACGCAAAAGUGCAUUCGCGCUGGCGG
.........(((((((.(((((........((((((((..(((..(((((..........)))))...)))..))))))))((((.(((((....)))))..))))))))).))))))). ( -46.70)
>DroGri_CAF1 3346 120 - 1
CUUCACCAACGCCGGCAUGAAUCAGUUUAAGCCCAUUUUUUUGGGCACAGCGGAUCCGAACAGCGAAAUGUCGAAAUGGGUGCGUACGGUUAACACGCAGAAAUGCAUCCGAGCUGGCGG
.........(((((((...((((.......(((((......)))))...(((.(((((.....(((....)))...))))).)))..)))).....(((....)))......))))))). ( -42.20)
>DroWil_CAF1 2729 120 - 1
GUUUGCCAAUGCUGGCAUGAAUCAAUUUAAGCCUAUCUUUUUGGGUAUUGCUGAUCCCAACAGCGAGAUGUCCAAGUGGGUUCGUGUGGCCAACACUCAGAAAUGUAUUCGUGCUGGUGG
..........((..((((((((((.(((.(((((((....((((..(((((((.......))))..)))..))))))))))).((((.....))))...))).)).))))))))..)).. ( -37.30)
>DroMoj_CAF1 2725 120 - 1
CUUUGCCAACGCCGGCAUGAAUCAGUUUAAGCCCAUUUUCCUGGGCAUCGCUGAUCCCAAUAGCGAGAUGUCCAAAUGGGUGCGUGUUGUCAACACACAAAAAUGCAUUCGUGCUGGCGG
.........(((((((((((((((.(((..(((((((....((((((((((((.......))))))..)))))))))))))(.((((.....)))).).))).)).))))))))))))). ( -49.10)
>DroAna_CAF1 2723 120 - 1
GUUCGCCAACGCCGGCAUGAACCAGUUCAAGCCCAUCUUCCUGGGCACAGCCGAUCCGAACAGUGAAAUGGCCAAGUGGGUGCGAGUGGCAAACACGCAGAAGUGCAUUCGGGCCGGCGG
...((((.....((((.((((....)))).(((((......)))))...))))................((((..(((..(((.....)))..)))(((....))).....)))))))). ( -46.20)
>consensus
GUUCGCCAACGCCGGCAUGAAUCAGUUCAAGCCCAUUUUCCUGGGCACAGCUGAUCCCAACAGCGAAAUGUCCAAAUGGGUGCGUGUGGCCAACACGCAGAAAUGCAUUCGCGCUGGCGG
.........(((((((.(((((((.(((..(((((((....((((((.(((...........)))...)))))))))))))..(((((.....))))).))).)).))))).))))))). (-32.92 = -33.70 +   0.78)

alignment

secondary structure

dotplot

Window 1

Location	8,381,246 – 8,381,366
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.83
Mean single sequence MFE	-38.48
Consensus MFE	-27.25
Energy contribution	-26.81
Covariance contribution	-0.44
Combinations/Pair	1.35
Mean z-score	-2.29
Structure conservation index	0.71
SVM decision value	0.27
SVM RNA-class probability	0.663198
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8381246 120 - 22407834
ACUCGUCCAGCACGAUUCCAUUGGACGAUCCCACGCUGUUGUUCGCCAACGCCGGCAUGAAUCAGUUCAAGCCCAUUUUUCUGGGCACCGCUGAUCCCAACAGCGAAAUGUCCAAGUGGG
..((((((((..........)))))))).((((((((((((...(((......)))....((((((....(((((......)))))...))))))..)))))))((....))...))))) ( -45.30)
>DroVir_CAF1 2781 120 - 1
ACUCCUCCAGCACGAUACCGUUGGAUGAUCCCACCCUGCUUUUUGCCAACGCCGGCAUGAAUCAAUUCAAGCCCAUUUUCCUAGGCACUGCCGAUCCCAACAGUGAGAUGGCCAAAUGGG
..((.((((((........)))))).))........((.(((.((((......)))).))).)).......(((((((..(((..(((((..........)))))...)))..))))))) ( -30.40)
>DroGri_CAF1 3386 120 - 1
ACUCCUCCAGCACGAUUCCGCUGGAUGAUCCAACGCUACUCUUCACCAACGCCGGCAUGAAUCAGUUUAAGCCCAUUUUUUUGGGCACAGCGGAUCCGAACAGCGAAAUGUCGAAAUGGG
......(((...((((..(((((...(((((...((((((.((((((......))..))))..)))....(((((......)))))..))))))))....)))))....))))...))). ( -36.10)
>DroWil_CAF1 2769 120 - 1
AUUCGUCGAGUACAAUACCAUUAGAUGAUCCCACUCUAUUGUUUGCCAAUGCUGGCAUGAAUCAAUUUAAGCCUAUCUUUUUGGGUAUUGCUGAUCCCAACAGCGAGAUGUCCAAGUGGG
..(((((.(((........))).))))).((((((........(((((....)))))...(((.......(((((......))))).((((((.......))))))))).....)))))) ( -30.50)
>DroMoj_CAF1 2765 120 - 1
ACUCGUCCAGCACCAUUCCGUUGGACGAUCCCACUCUACUCUUUGCCAACGCCGGCAUGAAUCAGUUUAAGCCCAUUUUCCUGGGCAUCGCUGAUCCCAAUAGCGAGAUGUCCAAAUGGG
..(((((((((........))))))))).((((......((..((((......)))).))(((.......(((((......))))).((((((.......))))))))).......)))) ( -40.20)
>DroAna_CAF1 2763 120 - 1
ACUCGUCCAGCACGAUUCCCCUGGACGAUCCCACUUUGCUGUUCGCCAACGCCGGCAUGAACCAGUUCAAGCCCAUCUUCCUGGGCACAGCCGAUCCGAACAGUGAAAUGGCCAAGUGGG
..((((((((..........)))))))).(((((((.(((((((((...((.((((.((((....)))).(((((......)))))...))))...))....))).)))))).))))))) ( -48.40)
>consensus
ACUCGUCCAGCACGAUUCCGUUGGACGAUCCCACUCUACUGUUCGCCAACGCCGGCAUGAAUCAGUUCAAGCCCAUUUUCCUGGGCACAGCUGAUCCCAACAGCGAAAUGUCCAAAUGGG
..(((((((((........))))))))).((((........(((((......((((.((((....)))).(((((......)))))...)))).........))))).........)))) (-27.25 = -26.81 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:39:20 2006