Locus 2094

Sequence ID	X_DroMel_CAF1
Location	5,701,913 – 5,702,153
Length	240
Max. P	0.892426

overview

Window 6

Location	5,701,913 – 5,702,015
Length	102
Sequences	4
Columns	103
Reading direction	forward
Mean pairwise identity	93.46
Mean single sequence MFE	-23.12
Consensus MFE	-20.73
Energy contribution	-20.72
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.59
Structure conservation index	0.90
SVM decision value	0.44
SVM RNA-class probability	0.737859
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5701913 102 + 22224390
AUUCAAAUUAGUCCAAGCGAGCCCCACUAAC-CGAUGCGGAAAAUCCAAUUGAAUUUCUAUUGAUUCCCCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCC
..................(((...(((.((.-((((((((.....))..((((((((((((((......)))))))..))))))))))))).)))))..))). ( -22.00)
>DroSec_CAF1 23148 101 + 1
AUUCAAAUUAGGCCAAGCGAGCUCCACUAAC-CGAUGCGGA-AAUCCAAUUGAAUUUCUAUUGAUUCCCCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCC
.........(((((((.(((((((.......-......((.-...))....((((((((((((......)))))))..))))))))).))).))).))))... ( -23.40)
>DroSim_CAF1 26452 101 + 1
AUUCAAAUUAGGCCAAGCGAGCUCCACUAAC-CGAUGCGGA-AAUCCAAUUGAAUUUCUAUUGAUUCCCCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCC
.........(((((((.(((((((.......-......((.-...))....((((((((((((......)))))))..))))))))).))).))).))))... ( -23.40)
>DroEre_CAF1 21102 99 + 1
AUUCAAAUUUGGCCAAUC---CCCCACCCACUCGAUGCGGU-AAUCCAAUUGAAUUUCUAUUGAUUCCUCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCC
.........(((......---..)))..((((((((((((.-...))..(((((((((((((((....))))))))..))))))))))))))..)))...... ( -23.70)
>consensus
AUUCAAAUUAGGCCAAGCGAGCCCCACUAAC_CGAUGCGGA_AAUCCAAUUGAAUUUCUAUUGAUUCCCCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCC
........................(((.....((((((((.....))..((((((((((((((......)))))))..)))))))))))))...)))...... (-20.73 = -20.72 +  -0.00)

alignment

secondary structure

dotplot

Window 7

Location	5,701,949 – 5,702,041
Length	92
Sequences	4
Columns	92
Reading direction	forward
Mean pairwise identity	97.09
Mean single sequence MFE	-22.73
Consensus MFE	-19.70
Energy contribution	-19.70
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.12
Structure conservation index	0.87
SVM decision value	0.44
SVM RNA-class probability	0.735721
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5701949 92 + 22224390
CGGAAAAUCCAAUUGAAUUUCUAUUGAUUCCCCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCCAUAUAUUUGCGCUUUAGUUGCGGUAC
......((((((((((((((((((((......)))))))..)))))((((((.(((((((.....)))).))).)))))).))))).))).. ( -21.60)
>DroSec_CAF1 23184 91 + 1
CGGA-AAUCCAAUUGAAUUUCUAUUGAUUCCCCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCCAUAUAUUUGCGCUUUAGUUGCGCUAC
.(((-((.(((((..(..(((.((((((((......))))))))..)))..)..)))).).)))))........((((.......))))... ( -23.30)
>DroSim_CAF1 26488 91 + 1
CGGA-AAUCCAAUUGAAUUUCUAUUGAUUCCCCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCCAUAUAUUUGCGCUUUAGUUGCGCUAC
.(((-((.(((((..(..(((.((((((((......))))))))..)))..)..)))).).)))))........((((.......))))... ( -23.30)
>DroEre_CAF1 21136 91 + 1
CGGU-AAUCCAAUUGAAUUUCUAUUGAUUCCUCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCCAUAUAUUUGCGCUUUAGCUGCGGUAC
....-...((..(((((((((((((((....))))))))..)))))))(((((((..((((.............)))).))))).))))... ( -22.72)
>consensus
CGGA_AAUCCAAUUGAAUUUCUAUUGAUUCCCCAAUGGAUUAAUUCGAGCGUUGAUUGUGCUUUCCAUAUAUUUGCGCUUUAGUUGCGCUAC
.((.....))....((((((((((((......)))))))..)))))((((((.(((((((.....)))).))).))))))............ (-19.70 = -19.70 +  -0.00)

alignment

secondary structure

dotplot

Window 8

Location	5,702,015 – 5,702,119
Length	104
Sequences	4
Columns	104
Reading direction	reverse
Mean pairwise identity	87.64
Mean single sequence MFE	-29.90
Consensus MFE	-20.05
Energy contribution	-22.55
Covariance contribution	2.50
Combinations/Pair	1.10
Mean z-score	-2.32
Structure conservation index	0.67
SVM decision value	0.54
SVM RNA-class probability	0.774327
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5702015 104 - 22224390
CAGACAGCGAUAAAUCAAUAUCAUGCGAGUAUGUAUGCCGGUUGUGGGUACAUAAUUCACACAUAGCCAGGCCGCACUGUACCGCAACUAAAGCGCAAAUAUAU
......((((((......)))).((((.((((((..((((((((((.((.........)).))))))).)))...)).))))))))........))........ ( -26.00)
>DroSec_CAF1 23249 103 - 1
CAGACAGCGAUAAAUCAAUAUCAUGCGCGUAUGUCUGCCGGCUGUGUGUACAUA-UUCGCACAUAGCCAGGCCGCACUGUAGCGCAACUAAAGCGCAAAUAUAU
......((((((......)))).(((((....(((.(((((((((((((.....-...)))))))))).))).).))....)))))........))........ ( -36.30)
>DroSim_CAF1 26553 103 - 1
CAGACAGCGAUAAAUCAAUAUCAUGCGAGUAUGUCUGCCGGCUGUGUGUACAUA-UUCGCACAUAGCCAGGCCGCACUGUAGCGCAACUAAAGCGCAAAUAUAU
...((((.((((......)))).((((((.....))(((((((((((((.....-...)))))))))).))))))))))).((((.......))))........ ( -36.20)
>DroEre_CAF1 21201 97 - 1
CAGACGGCGAUAAAUCAAUAACCUGCGAGCAUGUAU-------GUAUGUACGCCAUGUGCACAUAGCCAGGCCGCACUGUACCGCAGCUAAAGCGCAAAUAUAU
......(((..............((((.((.((..(-------((.(((((.....))))).)))..)).))))))(((.....)))......)))........ ( -21.10)
>consensus
CAGACAGCGAUAAAUCAAUAUCAUGCGAGUAUGUAUGCCGGCUGUGUGUACAUA_UUCGCACAUAGCCAGGCCGCACUGUACCGCAACUAAAGCGCAAAUAUAU
...((((.((((......)))).((((.........(((((((((((((.........)))))))))).))))))))))).((((.......))))........ (-20.05 = -22.55 +   2.50)

alignment

secondary structure

dotplot

Window 9

Location	5,702,041 – 5,702,153
Length	112
Sequences	4
Columns	112
Reading direction	reverse
Mean pairwise identity	89.12
Mean single sequence MFE	-34.17
Consensus MFE	-27.46
Energy contribution	-28.78
Covariance contribution	1.31
Combinations/Pair	1.12
Mean z-score	-2.07
Structure conservation index	0.80
SVM decision value	0.97
SVM RNA-class probability	0.892426
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 5702041 112 - 22224390
GGCUAAUUGUUUCUGGCCAAAUAAAUCUGUGCACCAGACAGCGAUAAAUCAAUAUCAUGCGAGUAUGUAUGCCGGUUGUGGGUACAUAAUUCACACAUAGCCAGGCCGCACU
(((((........)))))..........((((..((.((.((((((......))))..))..)).))...((((((((((.((.........)).))))))).))).)))). ( -28.20)
>DroSec_CAF1 23275 111 - 1
GGCUAAUUGUUUCUGGCCAAAUAAAUCUGUGCGCCAGACAGCGAUAAAUCAAUAUCAUGCGCGUAUGUCUGCCGGCUGUGUGUACAUA-UUCGCACAUAGCCAGGCCGCACU
(((((........)))))..........(((((((((((((((................)))...)))))...((((((((((.....-...)))))))))).)).))))). ( -40.39)
>DroSim_CAF1 26579 111 - 1
GGCUAAUUGUUUCUGGCCAAAUAAAUCUGUGCGCCAGACAGCGAUAAAUCAAUAUCAUGCGAGUAUGUCUGCCGGCUGUGUGUACAUA-UUCGCACAUAGCCAGGCCGCACU
(((((........)))))..........((((((((((((((((((......))))..)).....)))))...((((((((((.....-...)))))))))).)).))))). ( -39.80)
>DroEre_CAF1 21227 105 - 1
GGCUAAUUGUUUCUGGCCAAAUAAAUCUGUGCGCCAGACGGCGAUAAAUCAAUAACCUGCGAGCAUGUAU-------GUAUGUACGCCAUGUGCACAUAGCCAGGCCGCACU
((((.......((((((((..........)).)))))).(((................(((.(((((...-------.))))).))).(((....))).))).))))..... ( -28.30)
>consensus
GGCUAAUUGUUUCUGGCCAAAUAAAUCUGUGCGCCAGACAGCGAUAAAUCAAUAUCAUGCGAGUAUGUAUGCCGGCUGUGUGUACAUA_UUCGCACAUAGCCAGGCCGCACU
((((.((((((((((((...(((....)))..)))))).))))))..........((((....))))......((((((((((.........)))))))))).))))..... (-27.46 = -28.78 +   1.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:26:09 2006