Locus 4689

Sequence ID	3L_DroMel_CAF1
Location	13,228,664 – 13,228,783
Length	119
Max. P	0.996292

overview

Window 7

Location	13,228,664 – 13,228,783
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.70
Mean single sequence MFE	-26.19
Consensus MFE	-8.96
Energy contribution	-9.78
Covariance contribution	0.82
Combinations/Pair	1.25
Mean z-score	-2.63
Structure conservation index	0.34
SVM decision value	1.33
SVM RNA-class probability	0.942353
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13228664 119 + 23771897
UUGAUAAUUGCAUGGGCUGACGAAAAAUAAGGGAUAUAACCCUGGAAUA-AAUAUCCCUUGGAUAUAAUUAUAUAUUCCGCGAUCAGCCCCAUGCGGUCAUAAUUCCCAACCUAUCCAAG
..((((...(((((((((((((......(((((((((............-.)))))))))(((((((....)))))))..)).)))).)))))))(((...........))))))).... ( -35.42)
>DroSec_CAF1 22038 119 + 1
UUGAUAAUUGCAUGGACUGACGAAAAAUAAGAGAUAUAAGCAUGAAAUA-AAUAUCCCUUGGAAAUAAUUACAUAUUCCACGAUCAGCCCCAUGCGGUCAUAAUUCCCAACCUAUCCAAG
..((((...((((((.((((((......(((.(((((............-.))))).)))((((...........)))).)).))))..))))))(((...........))))))).... ( -23.12)
>DroSim_CAF1 26999 119 + 1
UUGAUAAUUGCAUAGGCUGACGGAAAAUAAGGGAUAUAACCAUGGAAUA-AGUAUCCCUUGGAAAUAAUUAUAUAUUCCACGAUCAGCCCCAUGCGGUCAUAAUUCCCAACCUAUCCAAG
..((((...((((.((((((((......(((((((((............-.)))))))))(((((((....))).)))).)).))))))..))))(((...........))))))).... ( -31.52)
>DroEre_CAF1 11682 91 + 1
UUGAUAAUUGCAUGGCCUGACGAAAAAUAAGGUAUAUAACCAUGGAAUAAAAUAUUCCCUGGAAAUAAUUA-----------------------------UAAUUCCCAACCCGUGCAAG
.......((((((((..((..(((..((((..(((....(((.((((((...)))))).)))..))).)))-----------------------------)..))).))..)))))))). ( -21.10)
>DroYak_CAF1 22107 120 + 1
UUGAUAAUUGCAUGGCCUGACGAGCAGUAAGGUAUAUAACUAUUGAAUAAAAUAUCCCUUGAAAGUAAUUAUAUAUUCCGCGAUCAGCCCAAUGCAACCAUAAUUCCCUACAUAUCCAAG
.......((((((((.((((...((.(...(((((((((.((((...................)))).)))))))))).))..)))).)).))))))....................... ( -19.81)
>consensus
UUGAUAAUUGCAUGGCCUGACGAAAAAUAAGGGAUAUAACCAUGGAAUA_AAUAUCCCUUGGAAAUAAUUAUAUAUUCCACGAUCAGCCCCAUGCGGUCAUAAUUCCCAACCUAUCCAAG
.......(((.((((..((..(((...((((((((((..............))))))))))....................((((.((.....))))))....))).))..)))).))). ( -8.96 =  -9.78 +   0.82)

alignment

secondary structure

dotplot

Window 8

Location	13,228,664 – 13,228,783
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	79.70
Mean single sequence MFE	-33.90
Consensus MFE	-14.74
Energy contribution	-18.30
Covariance contribution	3.56
Combinations/Pair	1.20
Mean z-score	-3.32
Structure conservation index	0.43
SVM decision value	2.68
SVM RNA-class probability	0.996292
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13228664 119 - 23771897
CUUGGAUAGGUUGGGAAUUAUGACCGCAUGGGGCUGAUCGCGGAAUAUAUAAUUAUAUCCAAGGGAUAUU-UAUUCCAGGGUUAUAUCCCUUAUUUUUCGUCAGCCCAUGCAAUUAUCAA
....(((((((((.......)))))(((((((.(((((...(((.((((....)))))))(((((((((.-.(((....))).))))))))).......))))))))))))...)))).. ( -41.50)
>DroSec_CAF1 22038 119 - 1
CUUGGAUAGGUUGGGAAUUAUGACCGCAUGGGGCUGAUCGUGGAAUAUGUAAUUAUUUCCAAGGGAUAUU-UAUUUCAUGCUUAUAUCUCUUAUUUUUCGUCAGUCCAUGCAAUUAUCAA
....(((((((((.......)))))(((((((.(((((.(.((((((......)))))))(((((((((.-............))))))))).......))))))))))))...)))).. ( -33.62)
>DroSim_CAF1 26999 119 - 1
CUUGGAUAGGUUGGGAAUUAUGACCGCAUGGGGCUGAUCGUGGAAUAUAUAAUUAUUUCCAAGGGAUACU-UAUUCCAUGGUUAUAUCCCUUAUUUUCCGUCAGCCUAUGCAAUUAUCAA
....(((((((((.......)))))(((((((.((((.((..(((((......(((..(((.(((((...-.))))).)))..))).....)))))..)))))))))))))...)))).. ( -38.70)
>DroEre_CAF1 11682 91 - 1
CUUGCACGGGUUGGGAAUUA-----------------------------UAAUUAUUUCCAGGGAAUAUUUUAUUCCAUGGUUAUAUACCUUAUUUUUCGUCAGGCCAUGCAAUUAUCAA
.(((((.((.(((((((..(-----------------------------(((.(((..(((.((((((...)))))).)))..)))....))))..))).)))).)).)))))....... ( -25.40)
>DroYak_CAF1 22107 120 - 1
CUUGGAUAUGUAGGGAAUUAUGGUUGCAUUGGGCUGAUCGCGGAAUAUAUAAUUACUUUCAAGGGAUAUUUUAUUCAAUAGUUAUAUACCUUACUGCUCGUCAGGCCAUGCAAUUAUCAA
...................((((((((((.((.(((((.((((((((((((((((((....))(((((...)))))..))))))))))..)).))))..))))).))))))))))))... ( -30.30)
>consensus
CUUGGAUAGGUUGGGAAUUAUGACCGCAUGGGGCUGAUCGCGGAAUAUAUAAUUAUUUCCAAGGGAUAUU_UAUUCCAUGGUUAUAUCCCUUAUUUUUCGUCAGCCCAUGCAAUUAUCAA
.........................((((.((((((((...((((...........))))(((((((((..............))))))))).......))))))))))))......... (-14.74 = -18.30 +   3.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:49 2006