Locus 5772

Sequence ID	X_DroMel_CAF1
Location	14,963,092 – 14,963,201
Length	109
Max. P	0.993293

overview

Window 5

Location	14,963,092 – 14,963,201
Length	109
Sequences	4
Columns	109
Reading direction	forward
Mean pairwise identity	94.91
Mean single sequence MFE	-35.80
Consensus MFE	-35.30
Energy contribution	-34.92
Covariance contribution	-0.37
Combinations/Pair	1.07
Mean z-score	-2.59
Structure conservation index	0.99
SVM decision value	2.39
SVM RNA-class probability	0.993293
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14963092 109 + 22224390
AUACGAAACGCACACUCAGCUGAGAUAGACGGUUAAUUAAGCCGCCAACUGGCAGCCAGUUGCCACUUGCACUUGUUGGCCCGGUCCAAAGUGCGAUUCUUGUUCAACA
....(((.(((((.(((....)))...(((((((.....))))((((((((((((....)))))).........))))))...)))....))))).))).......... ( -34.50)
>DroSec_CAF1 7077 109 + 1
AUACGAAACGCACACUCAGCUGAGAUAGACGGUUAAUUAAGCCGCCAACUGGCAGCCAGUUGCCACUUGCACUUGUUGGCCCGGUCCAAAGUGCGAUUCUUGUUCAACA
....(((.(((((.(((....)))...(((((((.....))))((((((((((((....)))))).........))))))...)))....))))).))).......... ( -34.50)
>DroEre_CAF1 3417 103 + 1
AUACGAAACGCACACUCAGCUGAGAUAGACGGCUAAUUAAGCCGCCAACUGGCAGCCAGUUGCCGC------UUGUUGGCCCGGUCCAAAGUGCGAUUCUUGUUCAACA
....(((.(((((.(((....)))...((((((((((.((((.((.((((((...)))))))).))------)))))))))..)))....))))).))).......... ( -38.10)
>DroYak_CAF1 9055 103 + 1
AUACGAAACGCACACUCAGCUGAGAUAGACGGUUAAUUAAGCCGCCAACUGGCAGCCAGUUGCCAC------UUGUUGGCCCGGUCCAAAGUGCGAUUCUUGUUUAACA
....(((.(((((.(((....)))...(((((((.....))))((((((((((((....)))))).------..))))))...)))....))))).))).......... ( -36.10)
>consensus
AUACGAAACGCACACUCAGCUGAGAUAGACGGUUAAUUAAGCCGCCAACUGGCAGCCAGUUGCCAC______UUGUUGGCCCGGUCCAAAGUGCGAUUCUUGUUCAACA
....(((.(((((.(((....)))...(((((((.....))))((((((((((((....)))))).........))))))...)))....))))).))).......... (-35.30 = -34.92 +  -0.37)

alignment

secondary structure

dotplot

Window 6

Location	14,963,092 – 14,963,201
Length	109
Sequences	4
Columns	109
Reading direction	reverse
Mean pairwise identity	94.91
Mean single sequence MFE	-37.35
Consensus MFE	-34.38
Energy contribution	-34.62
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-2.03
Structure conservation index	0.92
SVM decision value	1.21
SVM RNA-class probability	0.930958
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14963092 109 - 22224390
UGUUGAACAAGAAUCGCACUUUGGACCGGGCCAACAAGUGCAAGUGGCAACUGGCUGCCAGUUGGCGGCUUAAUUAACCGUCUAUCUCAGCUGAGUGUGCGUUUCGUAU
..........(((.(((((..(((((.((((((.(........)))))....(((((((....))))))).......))))))).(((....))).))))).))).... ( -35.90)
>DroSec_CAF1 7077 109 - 1
UGUUGAACAAGAAUCGCACUUUGGACCGGGCCAACAAGUGCAAGUGGCAACUGGCUGCCAGUUGGCGGCUUAAUUAACCGUCUAUCUCAGCUGAGUGUGCGUUUCGUAU
..........(((.(((((..(((((.((((((.(........)))))....(((((((....))))))).......))))))).(((....))).))))).))).... ( -35.90)
>DroEre_CAF1 3417 103 - 1
UGUUGAACAAGAAUCGCACUUUGGACCGGGCCAACAA------GCGGCAACUGGCUGCCAGUUGGCGGCUUAAUUAGCCGUCUAUCUCAGCUGAGUGUGCGUUUCGUAU
..........(((.(((((..(((((...((((((..------(((((.....)))))..))))))((((.....))))))))).(((....))).))))).))).... ( -41.30)
>DroYak_CAF1 9055 103 - 1
UGUUAAACAAGAAUCGCACUUUGGACCGGGCCAACAA------GUGGCAACUGGCUGCCAGUUGGCGGCUUAAUUAACCGUCUAUCUCAGCUGAGUGUGCGUUUCGUAU
..........(((.(((((..(((((.((((((....------.))))....(((((((....))))))).......))))))).(((....))).))))).))).... ( -36.30)
>consensus
UGUUGAACAAGAAUCGCACUUUGGACCGGGCCAACAA______GUGGCAACUGGCUGCCAGUUGGCGGCUUAAUUAACCGUCUAUCUCAGCUGAGUGUGCGUUUCGUAU
..........(((.(((((..(((((.((((((...........))))....(((((((....))))))).......))))))).(((....))).))))).))).... (-34.38 = -34.62 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:01 2006