Locus 6832

Sequence ID	3L_DroMel_CAF1
Location	18,339,124 – 18,339,218
Length	94
Max. P	0.738796

overview

Window 1

Location	18,339,124 – 18,339,218
Length	94
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	88.62
Mean single sequence MFE	-29.60
Consensus MFE	-23.78
Energy contribution	-23.53
Covariance contribution	-0.25
Combinations/Pair	1.14
Mean z-score	-1.97
Structure conservation index	0.80
SVM decision value	-0.01
SVM RNA-class probability	0.529649
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18339124 94 + 23771897
AAGUUAUGGCUACUUGUACAU-GGGCUCGAGGACCGGCAU-CUAAGUGCAGUGA-AAUGCACUCGAGACGAGGGUACAGUUGCCAUUGCAAGGAGUA
..((.(((((.(((.((((.(-.(.((((((((......)-))..(((((....-..)))))))))).).)..))))))).))))).))........ ( -30.90)
>DroSec_CAF1 123371 94 + 1
AAGUUAUGGCUACUUGUACAA-GGGCUCGAGGACCGGCAU-CUGAGUGCAGUAA-AAUGCACUCGAGACGACGGUACAGUUGCCAUUGCAAGGAGUA
........(((.((((((...-.(((......((((.(.(-(((((((((....-..))))))).))).).))))......)))..)))))).))). ( -34.40)
>DroSim_CAF1 133517 95 + 1
AAGUUAUGGCUACUUGUACAU-GGACUCGAGGACCGGCAUUCUAAGUGCAGUGA-AAUGCACUCGAGACGAGGGUACAGUUGCCAUUGCAAGGAGUA
..((.(((((.(((.((((.(-.(.((((((.....((((.....)))).((..-...)).)))))).).)..))))))).))))).))........ ( -30.50)
>DroEre_CAF1 119331 95 + 1
AAGUUAUGGCUACUUGUACAU-GGACUCGAGGACCGCCGU-CUAAGUGCACUGAAAAUGCACUCGAGACGAGGGUACAGUUGCCACUGAAAGGAGUA
......((((.(((.((((..-...(((..((....))((-((.((((((.(....)))))))..))))))).))))))).))))((....)).... ( -30.30)
>DroYak_CAF1 129893 95 + 1
AAGUUAUGGCUACUUGUACAU-GGACUCGAGGACCACCAU-CUAAGUGCAGUGAAAAUGCACUCGAGACGAGGGUACAGUUGCCAUUGAAGGCAGUA
..((((((((.(((.((((..-...((((.((....)).(-((.((((((.......))))))..))))))).))))))).)))))....))).... ( -29.00)
>DroAna_CAF1 120628 96 + 1
AAGUUAUGGCUACUUGUACAUUGGGCUUGAGGACUGACAG-AUGAGUGCAGUGGAAAUGCACUUGAGACUAGAGUACAGUUGCUUCUCAAAGAAGUA
.(((....)))..((((((.((((.(((..(......)..-..(((((((.......)))))))))).)))).)))))).((((((.....)))))) ( -22.50)
>consensus
AAGUUAUGGCUACUUGUACAU_GGACUCGAGGACCGGCAU_CUAAGUGCAGUGA_AAUGCACUCGAGACGAGGGUACAGUUGCCAUUGAAAGGAGUA
......((((.(((.((((......((((((......).......(((((.......))))))))))......))))))).))))............ (-23.78 = -23.53 +  -0.25)

alignment

secondary structure

dotplot

Window 2

Location	18,339,124 – 18,339,218
Length	94
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	88.62
Mean single sequence MFE	-27.65
Consensus MFE	-21.30
Energy contribution	-21.86
Covariance contribution	0.56
Combinations/Pair	1.09
Mean z-score	-2.96
Structure conservation index	0.77
SVM decision value	0.44
SVM RNA-class probability	0.738796
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18339124 94 - 23771897
UACUCCUUGCAAUGGCAACUGUACCCUCGUCUCGAGUGCAUU-UCACUGCACUUAG-AUGCCGGUCCUCGAGCCC-AUGUACAAGUAGCCAUAACUU
...........(((((.(((((((...(((((.(((((((..-....)))))))))-)))..(((......))).-..)))).))).)))))..... ( -28.60)
>DroSec_CAF1 123371 94 - 1
UACUCCUUGCAAUGGCAACUGUACCGUCGUCUCGAGUGCAUU-UUACUGCACUCAG-AUGCCGGUCCUCGAGCCC-UUGUACAAGUAGCCAUAACUU
((((...(((((.(((....(.((((.(((((.(((((((..-....)))))))))-))).)))).)....))).-)))))..)))).......... ( -33.90)
>DroSim_CAF1 133517 95 - 1
UACUCCUUGCAAUGGCAACUGUACCCUCGUCUCGAGUGCAUU-UCACUGCACUUAGAAUGCCGGUCCUCGAGUCC-AUGUACAAGUAGCCAUAACUU
...........(((((.(((((((.....(((.(((((((..-....)))))))))).....((.(.....).))-..)))).))).)))))..... ( -25.50)
>DroEre_CAF1 119331 95 - 1
UACUCCUUUCAGUGGCAACUGUACCCUCGUCUCGAGUGCAUUUUCAGUGCACUUAG-ACGGCGGUCCUCGAGUCC-AUGUACAAGUAGCCAUAACUU
...........(((((.(((((((..((((((.((((((((.....))))))))))-)))).((.(.....).))-..)))).))).)))))..... ( -33.00)
>DroYak_CAF1 129893 95 - 1
UACUGCCUUCAAUGGCAACUGUACCCUCGUCUCGAGUGCAUUUUCACUGCACUUAG-AUGGUGGUCCUCGAGUCC-AUGUACAAGUAGCCAUAACUU
...........(((((.(((((((...(((((.(((((((.......)))))))))-)))((((.(.....).))-)))))).))).)))))..... ( -30.80)
>DroAna_CAF1 120628 96 - 1
UACUUCUUUGAGAAGCAACUGUACUCUAGUCUCAAGUGCAUUUCCACUGCACUCAU-CUGUCAGUCCUCAAGCCCAAUGUACAAGUAGCCAUAACUU
(((((..((((((.....(((.....)))))))))(((((((...((((.((....-..))))))..........)))))))))))).......... ( -14.12)
>consensus
UACUCCUUGCAAUGGCAACUGUACCCUCGUCUCGAGUGCAUU_UCACUGCACUUAG_AUGCCGGUCCUCGAGCCC_AUGUACAAGUAGCCAUAACUU
...........(((((.(((((((....(.((((((..(.......(((....))).......)..)))))).)....)))).))).)))))..... (-21.30 = -21.86 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:50 2006