Locus 6302

Sequence ID	3L_DroMel_CAF1
Location	16,798,029 – 16,798,169
Length	140
Max. P	0.998966

overview

Window 0

Location	16,798,029 – 16,798,144
Length	115
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	94.00
Mean single sequence MFE	-36.66
Consensus MFE	-32.12
Energy contribution	-31.92
Covariance contribution	-0.20
Combinations/Pair	1.12
Mean z-score	-2.44
Structure conservation index	0.88
SVM decision value	3.30
SVM RNA-class probability	0.998966
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16798029 115 - 23771897
GCUUGAUUGCAACAAAUUAUUGGACUGCUUUCAUUUGCAUUUUCCAAGCCCUUGGUGAAUGUAAAUCGGAUGGGCCUUGACUUGGGUCCCCGACCUGCGAUCGGCAUUCCAUAGA
(((.(((((((......................(((((((((.((((....)))).)))))))))((((..((((((......))))))))))..)))))))))).......... ( -37.90)
>DroSec_CAF1 46366 115 - 1
GCUUGAUUGCAACAAAUUAUUGGACUACUUUCAUUUGCAUUUUCCAAGCCCUUGGUGAAUGUAAAUCGGAUGGGCCUUGACUUGGGUCCCCGACCUGCGAUCGGCAUUCCAUAGA
(((.(((((((......................(((((((((.((((....)))).)))))))))((((..((((((......))))))))))..)))))))))).......... ( -37.90)
>DroSim_CAF1 51274 115 - 1
GCUUGAUUGCAACAAAUUAUUGGACUACUUUCAUUUGCAUUUUCCAAGCCCUUGGUGAAUGUAAAUCGGAUGGGCCUUGACUUGGGUCCCCGACCUGCGAUCGGCAUUCCAUAGA
(((.(((((((......................(((((((((.((((....)))).)))))))))((((..((((((......))))))))))..)))))))))).......... ( -37.90)
>DroEre_CAF1 46625 115 - 1
ACUUGAUUGCAACAAAUUAUUGGACUGCUUUCAUUUGCAUUUUCCAAGCCCUUGGUGGAUGUAAAUUGAAAGGGCCUUGACUUGGGUCCCCGACCUGUGAUCGGCAUUCCACAGA
..(((((..((.(((.(((..((.((.((((((((((((((..((((....))))..)))))))).)))))))))).))).)))((((...))))))..)))))........... ( -34.10)
>DroYak_CAF1 47080 115 - 1
ACUUGAUUGCUACACUUUGUUGAACUACUUUCAUUUGCAUUUUCCAAGCCCUUGGUGGAUGUAAAUUGAGUGGGCCUUGACUUGGGUCCCCGACCUGCGAUCGGCAUUCCAAAGA
.(((((((((........((..(.((((((..(((((((((..((((....))))..))))))))).))))))...)..))..(((((...)))))))))))((....)).))). ( -35.50)
>consensus
GCUUGAUUGCAACAAAUUAUUGGACUACUUUCAUUUGCAUUUUCCAAGCCCUUGGUGAAUGUAAAUCGGAUGGGCCUUGACUUGGGUCCCCGACCUGCGAUCGGCAUUCCAUAGA
(((.(((((((..................((((((((((((..((((....))))..))))))))).))).((((((......))))))......)))))))))).......... (-32.12 = -31.92 +  -0.20)

alignment

secondary structure

dotplot

Window 1

Location	16,798,064 – 16,798,169
Length	105
Sequences	3
Columns	106
Reading direction	reverse
Mean pairwise identity	96.85
Mean single sequence MFE	-24.40
Consensus MFE	-24.62
Energy contribution	-24.40
Covariance contribution	-0.22
Combinations/Pair	1.03
Mean z-score	-1.28
Structure conservation index	1.01
SVM decision value	-0.04
SVM RNA-class probability	0.514364
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16798064 105 - 23771897
-AACAAAGAUAAUGAUAAUCGAUCGUGCUUGAUUGCAACAAAUUAUUGGACUGCUUUCAUUUGCAUUUUCCAAGCCCUUGGUGAAUGUAAAUCGGAUGGGCCUUGA
-..(((.((((((......((((((....))))))......))))))((.((...(((((((((((((.((((....)))).)))))))))).)))..))))))). ( -24.30)
>DroSec_CAF1 46401 105 - 1
-AACAAAGAUAAUAAUAGUCAAUCGUGCUUGAUUGCAACAAAUUAUUGGACUACUUUCAUUUGCAUUUUCCAAGCCCUUGGUGAAUGUAAAUCGGAUGGGCCUUGA
-..(((.((((((......((((((....))))))......))))))((.((...(((((((((((((.((((....)))).)))))))))).)))..))))))). ( -24.60)
>DroSim_CAF1 51309 106 - 1
AAACAAAGAUAAUAAUAGUCGAUCGUGCUUGAUUGCAACAAAUUAUUGGACUACUUUCAUUUGCAUUUUCCAAGCCCUUGGUGAAUGUAAAUCGGAUGGGCCUUGA
...(((.((((((......((((((....))))))......))))))((.((...(((((((((((((.((((....)))).)))))))))).)))..))))))). ( -24.30)
>consensus
_AACAAAGAUAAUAAUAGUCGAUCGUGCUUGAUUGCAACAAAUUAUUGGACUACUUUCAUUUGCAUUUUCCAAGCCCUUGGUGAAUGUAAAUCGGAUGGGCCUUGA
...(((.((((((......((((((....))))))......))))))((.((...(((((((((((((.((((....)))).)))))))))).)))..))))))). (-24.62 = -24.40 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:09 2006