Locus 553

Sequence ID	2R_DroMel_CAF1
Location	2,896,564 – 2,896,705
Length	141
Max. P	0.929779

overview

Window 5

Location	2,896,564 – 2,896,675
Length	111
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	77.12
Mean single sequence MFE	-42.80
Consensus MFE	-24.50
Energy contribution	-25.28
Covariance contribution	0.79
Combinations/Pair	1.56
Mean z-score	-2.12
Structure conservation index	0.57
SVM decision value	1.20
SVM RNA-class probability	0.929779
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2896564 111 + 20766785
GUCUCUUCGAUUUCCCGUAACUGUCGUUGCUUGCCCUCGAUCUCAGCGACCAGUUUGCGCAAUUUUUUCUGCAGCUGUUCAAUAGGAGCAGUGGCGGCGGCGGCAGCGAGA
.((((..((......))...(((((((((((.(((..........((((.....))))(((........))).(((((((.....))))))))))))))))))))).)))) ( -37.70)
>DroVir_CAF1 1544 108 + 1
GUCUGUUCGAUUUCAUUCAGCUGUCGCUGACGCGCCUCGAUUUCGGCGUGCAGCUUUCGCACCUUUUUCUGCACCUGCUCAAUGGGCGCAUUUGCGCCAGCAGCGCCG---
(.(((((......((((.(((....((((.((((((........))))))))))....(((........)))....))).))))(((((....)))))))))))....--- ( -39.80)
>DroPse_CAF1 1601 111 + 1
GUCUGCUCGAUCUCCUUCAGCUGCCGCUGCCGUCCCUCGAUCUCAGCGUGCAGCUUUCGCAGUUUCUUCUGCAGCUGCUCGAUGGGCGCAUUGGCGGCAGCGGCGGCAAUG
........((......)).(((((((((((((((...((..((((.((.((((((...((((......)))))))))).)).))))))....))))))))))))))).... ( -56.00)
>DroEre_CAF1 1556 111 + 1
GUCUCUUCGAUUUCCCGCAACUGUCGUUGCUUGCCCUCGAUCUCAGCGACCAGUUUGCGCAAUUUUUUCUGCAACUGCUCAAUAGGCGCAGUGGCAGCGGCGGCAGCGAGA
.((((..((......))...(((((((((((.(((((((.(((....((.(((((.(((.((....)).)))))))).))...))))).)).)))))))))))))).)))) ( -36.80)
>DroWil_CAF1 1520 111 + 1
GUCUGUUCGAUCUCCUUAAGUUGACGCUGGCGACCCUCAAUCUCUGCAUGAAGUUUGCGUAGUUUUUUCUGCAGUUGUUCAAUGGGAGCAUUGAUAGCGGCAGCUGCAGCU
..................(((((..((((.((.(..((((((((((((.......)))((((......))))............)))).)))))..))).))))..))))) ( -30.50)
>DroPer_CAF1 1601 111 + 1
GUCUGCUCGAUCUCCUUCAGCUGCCGCUGCCGUCCCUCGAUCUCAGCGUGCAGCUUUCGCAGUUUCUUCUGCAGCUGCUCGAUGGGCGCAUUGGCGGCAGCGGCGGCAAUG
........((......)).(((((((((((((((...((..((((.((.((((((...((((......)))))))))).)).))))))....))))))))))))))).... ( -56.00)
>consensus
GUCUGUUCGAUCUCCUUCAGCUGUCGCUGCCGGCCCUCGAUCUCAGCGUGCAGCUUGCGCAGUUUUUUCUGCAGCUGCUCAAUGGGCGCAUUGGCGGCAGCGGCGGCAAGA
...................((((((((((((..........((((....((((((...(((........)))))))))....)))).((....)))))))))))))).... (-24.50 = -25.28 +   0.79)

alignment

secondary structure

dotplot

Window 6

Location	2,896,604 – 2,896,705
Length	101
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	81.19
Mean single sequence MFE	-40.32
Consensus MFE	-23.11
Energy contribution	-22.83
Covariance contribution	-0.27
Combinations/Pair	1.34
Mean z-score	-1.87
Structure conservation index	0.57
SVM decision value	-0.02
SVM RNA-class probability	0.525422
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2896604 101 - 20766785
UUCUUCGGGCGAAGGAAUCCGUCAGGCGGCUCUCGCUGCCGCCGCCGCCACUGCUCCUAUUGAACAGCUGCAGAAAAAAUUGCGCAAACUGGUCGCUGAGA
((((((....)))))).....(((((((((.......))))))((.(((((((.((.....)).)))..((((......))))......)))).))))).. ( -30.50)
>DroPse_CAF1 1641 101 - 1
CUCCGCAGGCGAAGGGCUGCGGCAGGCGGCCAUUGCCGCCGCUGCCGCCAAUGCGCCCAUCGAGCAGCUGCAGAAGAAACUGCGAAAGCUGCACGCUGAGA
(((.((.((((...(((.(((((.((((((....))))))))))).)))....))))......((((((((((......))))...))))))..)).))). ( -56.40)
>DroSec_CAF1 1461 101 - 1
UUCUUCGGGCGAAGGACUUCGUCAAGCAGCUCUCGCAGCGGCCGCUGCCACAGCUCCAACUGAACAGCUGCAGAAAAAAUUACGCAAACUGGUCGCCGAGA
.......((((((....)))))).......(((((..((((((((((...(((......)))..))))(((............)))....))))))))))) ( -30.70)
>DroEre_CAF1 1596 101 - 1
UUCUUCGGGCGAGGGACUCCGUCAGGCAGCUCUCGCUGCCGCCGCUGCCACUGCGCCUAUUGAGCAGUUGCAGAAAAAAUUGCGCAAACUGGUCGCUGAGA
.((((..(((((.((...)).)).((((((....))))))))).((((.(((((.........))))).))))........((((......).))).)))) ( -37.10)
>DroYak_CAF1 1575 101 - 1
UUCUUCGGGCGAGGGACUUCGUCAGGCAGCUCUCGCUGCCGCCGCUGCCACUGCUCCUAUUGAACAGCUGCAAAAAAAAUUGCGCAAACUAGUAGCCGAGA
...(((((((((.(.....).)).((((((....)))))))))(((((..(((.((.....)).)))..((((......))))........))))))))). ( -32.70)
>DroPer_CAF1 1641 101 - 1
CUCCGCAGGCGAAGGGCUGCGGCAGGUGGCCAUUGCCGCCGCUGCCGCCAAUGCGCCCAUCGAGCAGCUGCAGAAGAAACUGCGAAAGCUGCACGCUGAGA
(((.((.((((...(((.(((((.((((((....))))))))))).)))....))))......((((((((((......))))...))))))..)).))). ( -54.50)
>consensus
UUCUUCGGGCGAAGGACUCCGUCAGGCAGCUCUCGCUGCCGCCGCCGCCACUGCGCCUAUUGAACAGCUGCAGAAAAAAUUGCGCAAACUGGUCGCUGAGA
...((((((((..((....((...((((((....))))))..))...))..)))......(((.(((.(((((......)))))....))).)))))))). (-23.11 = -22.83 +  -0.27)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:34 2006