Locus 7825

Sequence ID	X_DroMel_CAF1
Location	19,484,816 – 19,484,936
Length	120
Max. P	0.795701

overview

Window 6

Location	19,484,816 – 19,484,936
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.28
Mean single sequence MFE	-56.52
Consensus MFE	-53.92
Energy contribution	-53.67
Covariance contribution	-0.25
Combinations/Pair	1.10
Mean z-score	-1.58
Structure conservation index	0.95
SVM decision value	0.48
SVM RNA-class probability	0.754113
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19484816 120 + 22224390
CCGGCAGCAGGUCGGACCACUGCUGCGGCCACUCGCGCUUGAUCAUCUCGACGAUGAUGCGCGACAGCGCGUCCUUCGUGGGCAGCAGCGAGCGGUCCUCCGCCGGGCCCACGCCCACGU
..(((....((..(((((.(((((((.(((..((((((...((((((.....))))))))))))...((((.....))))))).))))).)).))))).)))))((((....)))).... ( -59.40)
>DroSec_CAF1 6801 120 + 1
CCGGCAGCAGGUCGGACCACUGCUGCGGCCACUCGCGCUUGAUCAUCUCGACGAUGAUGCGCGACAGCGCGUCCUUCGUGGGCAGCAGCGAGCGGUCCUCCGCCGGGCCCACGCCCACGU
..(((....((..(((((.(((((((.(((..((((((...((((((.....))))))))))))...((((.....))))))).))))).)).))))).)))))((((....)))).... ( -59.40)
>DroEre_CAF1 6482 120 + 1
CCGGCAAUAGGUCGGACCACUGUUGCGGCCACUCGCGCUUGAUCAUCUCGACGAUGAUGCGCGAUAGCGCGUCCUUCGUGGGCAGCAGCGAGCGGUCUUCCGCUGGGCCCACUCCCACGU
...(((((((.........)))))))((((.((((((((..((((((.....))))))((((....))))((((.....))))))).))))).))))...((.((((......)))))). ( -51.30)
>DroYak_CAF1 6037 120 + 1
CCGGCAGUAGAUCGGACCACUGCUGCGGCCACUCGCGCUUAAUCAUCUCGACGAUGAUGCGCGACAGCGCGUCCUUUGUGGGCAGCAGCGUGCGGUCCUCCGCCGGGCCCACGCCCACGU
..(((.(.....)(((((.(((((((.(((..((((((...((((((.....))))))))))))...((((.....))))))).)))))).).)))))...)))((((....)))).... ( -56.00)
>consensus
CCGGCAGCAGGUCGGACCACUGCUGCGGCCACUCGCGCUUGAUCAUCUCGACGAUGAUGCGCGACAGCGCGUCCUUCGUGGGCAGCAGCGAGCGGUCCUCCGCCGGGCCCACGCCCACGU
..(((....((..(((((.(((((((.(((..((((((...((((((.....))))))))))))...((((.....))))))).)))))).).))))).)))))((((....)))).... (-53.92 = -53.67 +  -0.25)

alignment

secondary structure

dotplot

Window 7

Location	19,484,816 – 19,484,936
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.28
Mean single sequence MFE	-60.35
Consensus MFE	-55.19
Energy contribution	-54.62
Covariance contribution	-0.56
Combinations/Pair	1.10
Mean z-score	-1.74
Structure conservation index	0.91
SVM decision value	0.60
SVM RNA-class probability	0.795701
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19484816 120 - 22224390
ACGUGGGCGUGGGCCCGGCGGAGGACCGCUCGCUGCUGCCCACGAAGGACGCGCUGUCGCGCAUCAUCGUCGAGAUGAUCAAGCGCGAGUGGCCGCAGCAGUGGUCCGACCUGCUGCCGG
....((((....))))(((((.((((((((.(((((.((((.(....)........((((((((((((.....))))))...))))))).))).)))))))))))))......))))).. ( -63.60)
>DroSec_CAF1 6801 120 - 1
ACGUGGGCGUGGGCCCGGCGGAGGACCGCUCGCUGCUGCCCACGAAGGACGCGCUGUCGCGCAUCAUCGUCGAGAUGAUCAAGCGCGAGUGGCCGCAGCAGUGGUCCGACCUGCUGCCGG
....((((....))))(((((.((((((((.(((((.((((.(....)........((((((((((((.....))))))...))))))).))).)))))))))))))......))))).. ( -63.60)
>DroEre_CAF1 6482 120 - 1
ACGUGGGAGUGGGCCCAGCGGAAGACCGCUCGCUGCUGCCCACGAAGGACGCGCUAUCGCGCAUCAUCGUCGAGAUGAUCAAGCGCGAGUGGCCGCAACAGUGGUCCGACCUAUUGCCGG
..(((((.((((((.((((((........))))))..))))))...((((..((((((((((((((((.....))))))...)))))).))))(((....)))))))..)))))...... ( -54.30)
>DroYak_CAF1 6037 120 - 1
ACGUGGGCGUGGGCCCGGCGGAGGACCGCACGCUGCUGCCCACAAAGGACGCGCUGUCGCGCAUCAUCGUCGAGAUGAUUAAGCGCGAGUGGCCGCAGCAGUGGUCCGAUCUACUGCCGG
....((((....))))(((((.(((.((..(((((((((((.....))..(.((((((((((((((((.....))))))...)))))).))))))))))))))...)).))).))))).. ( -59.90)
>consensus
ACGUGGGCGUGGGCCCGGCGGAGGACCGCUCGCUGCUGCCCACGAAGGACGCGCUGUCGCGCAUCAUCGUCGAGAUGAUCAAGCGCGAGUGGCCGCAGCAGUGGUCCGACCUACUGCCGG
..(((((..((((((..((((....))))..((((((((((.....))..(.((((((((((((((((.....))))))...)))))).))))))))))))))))))).)))))...... (-55.19 = -54.62 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:27 2006