Locus 3444

Sequence ID	X_DroMel_CAF1
Location	9,229,395 – 9,229,524
Length	129
Max. P	0.873618

overview

Window 5

Location	9,229,395 – 9,229,495
Length	100
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	78.91
Mean single sequence MFE	-29.06
Consensus MFE	-23.02
Energy contribution	-23.02
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.21
Structure conservation index	0.79
SVM decision value	0.45
SVM RNA-class probability	0.742104
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9229395 100 - 22224390
AAGUCGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU--------GGCCCCAAAAACUGAACAGUCGACCCCGUGCGC------------CAUUUUCCCC
......(((((((((.....)))))).)))(((((....((((...))))((((.(.--------((........(((....)))....)).).))))------------...))))).. ( -28.10)
>DroPse_CAF1 12652 93 - 1
AACUUGGGCACGUGCAAAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCA--------GGCCCCCAGAACCC------CAUCCCCAU-CCC------------CAUCCUGCUC
..(((((((((((((.....)))))).((.(....)...((((...)))))))))))--------))............------.........-...------------.......... ( -27.20)
>DroEre_CAF1 15099 98 - 1
AAGUCGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU--------GGCCCCAAAAACUGAACAGUCGACCCC-UGCGC------------CAUUUUCCC-
......(((((((((.....)))))).)))(((((....((((...))))((((...--------((........(((....))).....))-.))))------------...))))).- ( -27.42)
>DroYak_CAF1 12871 100 - 1
AAGUCGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU--------GGCCCCAAAAACUGAACAGUCGACCCCAUGCGC------------CAUUUUCCCC
......(((((((((.....)))))).)))(((((....((((...))))((((..(--------((........(((....))).....))).))))------------...))))).. ( -28.52)
>DroAna_CAF1 16312 100 - 1
AAGUUGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU--------GGCCCCAAAAACUGAACAGUUGGCAGAGGAGGC------------CUUCCUCCCC
..(((.(((((((((.....)))))).)))(....)....))).((((((((((...--------.))..((.....))....)))))))).(((((.------------...))))).. ( -35.20)
>DroPer_CAF1 13219 113 - 1
AACUUGGGCACGUGCAAAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCAGGCACCCAGGCCCCCAGAACCC------CAUCCCCAU-CCCCAUUCCCAUUCCCAUCCUGCUC
..(((((((((((((.....)))))).((.(....)...((((...)))))))))))))....((((............------.........-..................))))... ( -27.93)
>consensus
AAGUCGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU________GGCCCCAAAAACUGAACAGUCGACCCCAUGCGC____________CAUCCUCCCC
.....((((((((((.....)))))).((.(....)...((((...))))))))))................................................................ (-23.02 = -23.02 +   0.00)

alignment

secondary structure

dotplot

Window 6

Location	9,229,423 – 9,229,524
Length	101
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.72
Mean single sequence MFE	-34.05
Consensus MFE	-27.68
Energy contribution	-27.84
Covariance contribution	0.17
Combinations/Pair	1.00
Mean z-score	-1.83
Structure conservation index	0.81
SVM decision value	0.88
SVM RNA-class probability	0.873618
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9229423 101 - 22224390
U----------UCUCCACUUUC-UCUCAGUUGGCCGCAAAAAGUCGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU--------GGCCCCAAAAACUGA
.----------...........-..((((((((((((.....)).((((((((((.....)))))).((.(....)...((((...)))))))))).--------)))).....)))))) ( -33.20)
>DroPse_CAF1 12674 104 - 1
UUGUCACUGGCUGUGCGCAUU-------UUUGGCCGCAAAAACUUGGGCACGUGCAAAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCA--------GGCCCCCAGAACCC-
......((((.((((.((...-------....))))))....(((((((((((((.....)))))).((.(....)...((((...)))))))))))--------))...)))).....- ( -37.20)
>DroEre_CAF1 15125 101 - 1
U----------CCUCCACUUUC-UCUCAGUUGGCCGCAAAAAGUCGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU--------GGCCCCAAAAACUGA
.----------...........-..((((((((((((.....)).((((((((((.....)))))).((.(....)...((((...)))))))))).--------)))).....)))))) ( -33.20)
>DroYak_CAF1 12899 101 - 1
U----------UCUCCACUUUC-UCUCAGUUGCCCGCAAAAAGUCGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU--------GGCCCCAAAAACUGA
.----------...........-..((((((((((((.....).)))))((((((.....)))))).(((((.......((((...)))).....))--------)))......)))))) ( -32.30)
>DroAna_CAF1 16340 99 - 1
U----------UCUGCACCUUUAGCU---UCGGCCGCAAAAAGUUGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU--------GGCCCCAAAAACUGA
.----------...((.......)).---..((((((.....)).((((((((((.....)))))).((.(....)...((((...)))))))))).--------))))........... ( -29.40)
>DroPer_CAF1 13253 112 - 1
UUGUCACUGGCUGUGCGCAUU-------UUUGGCCGCAAAAACUUGGGCACGUGCAAAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCAGGCACCCAGGCCCCCAGAACCC-
......((((.((....))..-------...((((.......(((((((((((((.....)))))).((.(....)...((((...)))))))))))))......)))).)))).....- ( -39.02)
>consensus
U__________UCUCCACUUUC_UCU__GUUGGCCGCAAAAAGUCGGGCACGUGCAGAGUGCACGUAGCCGGAAACAAAUGACAUUGUCAGCGCCCU________GGCCCCAAAAACUGA
...............................((((..........((((((((((.....)))))).((.(....)...((((...)))))))))).........))))........... (-27.68 = -27.84 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:41 2006