Locus 2753

Sequence ID	X_DroMel_CAF1
Location	7,421,471 – 7,421,582
Length	111
Max. P	0.996874

overview

Window 5

Location	7,421,471 – 7,421,565
Length	94
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	93.22
Mean single sequence MFE	-34.60
Consensus MFE	-29.82
Energy contribution	-30.22
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.73
Structure conservation index	0.86
SVM decision value	1.50
SVM RNA-class probability	0.959245
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7421471 94 + 22224390
CCUGAA-AAGGAGCAGGAUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAAAGGGAAGACGCUAUCGCCAGCCCAUCGCCA
(((...-.))).(((((((....))))))).(.(((.(((.(((.((((....(((((((.((....)).))))))).)))).))).))))))). ( -35.50)
>DroSec_CAF1 170285 94 + 1
CCGAAA-AAGGAGCAGGAUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAAAGGGAAGACGCUAUCGCCAGCCCAUCGCCA
((....-..)).(((((((....))))))).(.(((.(((.(((.((((....(((((((.((....)).))))))).)))).))).))))))). ( -32.90)
>DroSim_CAF1 172220 94 + 1
CCGAAA-AAGGAGCAGGAUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAAAGGGAAGACGCUAUCGCCAGCCCAUCGCCA
((....-..)).(((((((....))))))).(.(((.(((.(((.((((....(((((((.((....)).))))))).)))).))).))))))). ( -32.90)
>DroEre_CAF1 184577 94 + 1
CCGAAA-AAGGAGCAGGAUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUCGCCAAGUGGCAGACGCUAUCGCCAGCCCAACGCCA
((....-..)).(((((((....)))))))...(.((((..(((.((((....(((((..(((....)))..))))).)))).)))...))))). ( -35.90)
>DroYak_CAF1 210834 95 + 1
UCAACAGGAUCAGCAGGAUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAACGUGCAGACGCUAUCGCCAGCCCAUCGCCA
.........((.(((((((....))))))).))(((.(((.(((.((((....(((((((((......))))))))).)))).))).)))))).. ( -35.80)
>consensus
CCGAAA_AAGGAGCAGGAUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAAAGGGAAGACGCUAUCGCCAGCCCAUCGCCA
............(((((((....)))))))...(.(((((.(((.((((....(((((((.((....)).))))))).)))).))).)).)))). (-29.82 = -30.22 +   0.40)

alignment

secondary structure

dotplot

Window 6

Location	7,421,487 – 7,421,582
Length	95
Sequences	5
Columns	95
Reading direction	forward
Mean pairwise identity	96.95
Mean single sequence MFE	-37.68
Consensus MFE	-35.02
Energy contribution	-35.42
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.01
Structure conservation index	0.93
SVM decision value	2.76
SVM RNA-class probability	0.996874
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7421487 95 + 22224390
AUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAAAGGGAAGACGCUAUCGCCAGCCCAUCGCCACCAGCGAGCGGAUCAUG
....((((((..(((.(.(((((.(((.((((....(((((((.((....)).))))))).)))).))).)).)))).)))..))))))...... ( -36.40)
>DroSec_CAF1 170301 95 + 1
AUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAAAGGGAAGACGCUAUCGCCAGCCCAUCGCCACCAGCGAGCGGAUCAUG
....((((((..(((.(.(((((.(((.((((....(((((((.((....)).))))))).)))).))).)).)))).)))..))))))...... ( -36.40)
>DroSim_CAF1 172236 95 + 1
AUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAAAGGGAAGACGCUAUCGCCAGCCCAUCGCCACCAGCGAGCGGAUCAUG
....((((((..(((.(.(((((.(((.((((....(((((((.((....)).))))))).)))).))).)).)))).)))..))))))...... ( -36.40)
>DroEre_CAF1 184593 95 + 1
AUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUCGCCAAGUGGCAGACGCUAUCGCCAGCCCAACGCCACCAGCGAGCGGAUCAUG
....((((((..(((.(.((((..(((.((((....(((((..(((....)))..))))).)))).)))...))))).)))..))))))...... ( -39.90)
>DroYak_CAF1 210851 95 + 1
AUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAACGUGCAGACGCUAUCGCCAGCCCAUCGCCACCAGCGAGCGGAUCAUG
....((((((..(((.(.(((((.(((.((((....(((((((((......))))))))).)))).))).)).)))).)))..))))))...... ( -39.30)
>consensus
AUCAUCGUUCUGUGGAGCGCGUGAGCUCGCGAAUCAAGCGUUUGCCAAAGGGAAGACGCUAUCGCCAGCCCAUCGCCACCAGCGAGCGGAUCAUG
....((((((..(((.(.(((((.(((.((((....(((((((.((....)).))))))).)))).))).)).)))).)))..))))))...... (-35.02 = -35.42 +   0.40)

alignment

secondary structure

dotplot

Window 7

Location	7,421,487 – 7,421,582
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	96.95
Mean single sequence MFE	-38.14
Consensus MFE	-35.04
Energy contribution	-35.08
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.66
Structure conservation index	0.92
SVM decision value	1.66
SVM RNA-class probability	0.970340
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7421487 95 - 22224390
CAUGAUCCGCUCGCUGGUGGCGAUGGGCUGGCGAUAGCGUCUUCCCUUUGGCAAACGCUUGAUUCGCGAGCUCACGCGCUCCACAGAACGAUGAU
.......((.((..(((.((((.((((((.((((.(((((...((....))...)))))....)))).))))))))).).)))..)).))..... ( -35.80)
>DroSec_CAF1 170301 95 - 1
CAUGAUCCGCUCGCUGGUGGCGAUGGGCUGGCGAUAGCGUCUUCCCUUUGGCAAACGCUUGAUUCGCGAGCUCACGCGCUCCACAGAACGAUGAU
.......((.((..(((.((((.((((((.((((.(((((...((....))...)))))....)))).))))))))).).)))..)).))..... ( -35.80)
>DroSim_CAF1 172236 95 - 1
CAUGAUCCGCUCGCUGGUGGCGAUGGGCUGGCGAUAGCGUCUUCCCUUUGGCAAACGCUUGAUUCGCGAGCUCACGCGCUCCACAGAACGAUGAU
.......((.((..(((.((((.((((((.((((.(((((...((....))...)))))....)))).))))))))).).)))..)).))..... ( -35.80)
>DroEre_CAF1 184593 95 - 1
CAUGAUCCGCUCGCUGGUGGCGUUGGGCUGGCGAUAGCGUCUGCCACUUGGCGAACGCUUGAUUCGCGAGCUCACGCGCUCCACAGAACGAUGAU
.......((.((..(((.(((((((((((.((((.(((((.((((....)))).)))))....)))).)))))).))))))))..)).))..... ( -43.50)
>DroYak_CAF1 210851 95 - 1
CAUGAUCCGCUCGCUGGUGGCGAUGGGCUGGCGAUAGCGUCUGCACGUUGGCAAACGCUUGAUUCGCGAGCUCACGCGCUCCACAGAACGAUGAU
.......((.((..(((.((((.((((((.((((.(((((.(((......))).)))))....)))).))))))))).).)))..)).))..... ( -39.80)
>consensus
CAUGAUCCGCUCGCUGGUGGCGAUGGGCUGGCGAUAGCGUCUUCCCUUUGGCAAACGCUUGAUUCGCGAGCUCACGCGCUCCACAGAACGAUGAU
.......((.((..(((.((((.((((((.((((.(((((.(.((....)).).)))))....)))).))))))))).).)))..)).))..... (-35.04 = -35.08 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:23 2006