Locus 1501

Sequence ID	X_DroMel_CAF1
Location	4,427,479 – 4,427,639
Length	160
Max. P	0.998760

overview

Window 2

Location	4,427,479 – 4,427,599
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.33
Mean single sequence MFE	-41.60
Consensus MFE	-39.02
Energy contribution	-38.78
Covariance contribution	-0.24
Combinations/Pair	1.03
Mean z-score	-2.02
Structure conservation index	0.94
SVM decision value	3.21
SVM RNA-class probability	0.998760
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4427479 120 - 22224390
UCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACGACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCAAAGCUAAAGCUAAAGCCAAUACAGCGCCAAAUGGGCAGGC
.(((.((((..(((((((((........))))))))).((((..(((((((((....)))))..(((.....))).)))).(((....)))..))))...)))).(((.....)))))). ( -41.90)
>DroSec_CAF1 29884 120 - 1
UCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACGACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCAAAGCUAAAGCUAAAGCCAAUACAACGCCAAAUGGGCAGGC
.(((.((((..(((((((((........))))))))).((((..(((((((((....)))))..(((.....))).)))).(((....)))..))))...)))).(((.....)))))). ( -42.20)
>DroSim_CAF1 31192 120 - 1
UCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACGACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCAAAGCCAAAGCUAAAGCCAAUACAACGCCAAAUGGGCAGGC
.(((.(((.(((((((((((........)))))))...((((..(((((((((....)))))..(((.....))).)))).))))......)))).)))......(((.....)))))). ( -42.50)
>DroEre_CAF1 30857 120 - 1
UCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACAACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCAACGCUAAAGCUAAAGCCAAUACAACGCCAAAUGGGCAGGC
.(((.((((..(((((((((........))))))))).(((((.(((((((((....)))))..(((.....))).)))).)((....))...))))...)))).(((.....)))))). ( -41.60)
>DroYak_CAF1 30404 114 - 1
UCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACAACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCA------AAGCUAAAGCCAAUACAACGCCAAAUGGGACUUC
((((((((.(.(((((((((........))))))))).((((..(((((((((....)))))...((((....))))...------..)))).))))........).)))).)))).... ( -39.80)
>consensus
UCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACGACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCAAAGCUAAAGCUAAAGCCAAUACAACGCCAAAUGGGCAGGC
(((.((((.(.(((((((((........))))))))).((((..(((((((((....)))))...((((....))))...........)))).))))........).)))).)))..... (-39.02 = -38.78 +  -0.24)

alignment

secondary structure

dotplot

Window 3

Location	4,427,519 – 4,427,639
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.33
Mean single sequence MFE	-33.50
Consensus MFE	-31.90
Energy contribution	-31.66
Covariance contribution	-0.24
Combinations/Pair	1.03
Mean z-score	-1.65
Structure conservation index	0.95
SVM decision value	1.61
SVM RNA-class probability	0.967200
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4427519 120 + 22224390
UGGCUUCCAUUGAAGAUUGGCGCAGCAGCACCGCCAGCAGCCGUCGUCGAUGCAGUUGGCCAUCGACAAAGACAAAAGGAAAACACUCCAUGAAUCUUUAAUGAAGAAUCACCAGUUACC
(((((((.(((((((((((((((.((......))..)).)))(((((((((((.....).)))))))...)))....(((......)))...)))))))))))))).....)))...... ( -34.60)
>DroSec_CAF1 29924 119 + 1
UGGCUUCCAUUGAAGAUUGGCGCAGCAGCACCGCCAGCAGCCGUCGUCGAUGCAGUUGGCCAUCGACAAAGACAAAAGGAAAACACACCAUGAAUCUUUAAUGAAGAAUCACCAGUUAC-
(((((((.(((((((((((((((.((......))..)).)))(((((((((((.....).)))))))...)))....((........))...)))))))))))))).....))).....- ( -32.60)
>DroSim_CAF1 31232 120 + 1
UGGCUUCCAUUGAAGAUUGGCGCAGCAGCACCGCCAGCAGCCGUCGUCGAUGCAGUUGGCCAUCGACAAAGACAAAAGGAAAACACACCAUGAAUCUUUAAUGAAGAAUCACCAGUUACC
(((((((.(((((((((((((((.((......))..)).)))(((((((((((.....).)))))))...)))....((........))...)))))))))))))).....)))...... ( -32.60)
>DroEre_CAF1 30897 120 + 1
UGGCUUCCAUUGAAGAUUGGCGCAGCAGCACCGCCAGCAGCCGUUGUCGAUGCAGUUGGCCAUCGACAAAGACAAAAGGAAAACACUCCAUGAAUCUUUAAUGAAGAAUCACCAGUUACC
(((((((.(((((((((((((.((((.(((.((.((((....)))).)).))).)))))))................(((......)))...)))))))))))))).....)))...... ( -35.30)
>DroYak_CAF1 30438 120 + 1
UGGCUUCCAUUGAAGAUUGGCGCAGCAGCACCGCCAGCAGCCGUUGUCGAUGCAGUUGGCCAUCGACAAAGACAAAAGGAAAACACUACAUGAAUCUUUAAUGAAGAAUCACCAGUUACC
(((((((.(((((((((((((((.((......))..)).))).((((((((((.....).))))))))).......................)))))))))))))).....)))...... ( -32.40)
>consensus
UGGCUUCCAUUGAAGAUUGGCGCAGCAGCACCGCCAGCAGCCGUCGUCGAUGCAGUUGGCCAUCGACAAAGACAAAAGGAAAACACUCCAUGAAUCUUUAAUGAAGAAUCACCAGUUACC
(((((((.(((((((((((((((.((......))..)).)))(((((((((((.....).)))))))...)))...................)))))))))))))).....)))...... (-31.90 = -31.66 +  -0.24)

alignment

secondary structure

dotplot

Window 4

Location	4,427,519 – 4,427,639
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-38.80
Consensus MFE	-37.36
Energy contribution	-37.12
Covariance contribution	-0.24
Combinations/Pair	1.03
Mean z-score	-1.55
Structure conservation index	0.96
SVM decision value	1.36
SVM RNA-class probability	0.946213
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4427519 120 - 22224390
GGUAACUGGUGAUUCUUCAUUAAAGAUUCAUGGAGUGUUUUCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACGACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCA
((((.(((((((....)))).((((((....((((....))))....))))))(((((((........)))))))..))).))))((((((((....)))))..(((.....))).))). ( -39.80)
>DroSec_CAF1 29924 119 - 1
-GUAACUGGUGAUUCUUCAUUAAAGAUUCAUGGUGUGUUUUCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACGACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCA
-......(((.....((((((.((((((.............((....(((.(((((((((........))))))))).)))....)).(((((....))))))))))).)))))).))). ( -37.00)
>DroSim_CAF1 31232 120 - 1
GGUAACUGGUGAUUCUUCAUUAAAGAUUCAUGGUGUGUUUUCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACGACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCA
(((((((.((((.((((.....)))).)))).).))...........(((.(((((((((........))))))))).)))))))((((((((....)))))..(((.....))).))). ( -37.90)
>DroEre_CAF1 30897 120 - 1
GGUAACUGGUGAUUCUUCAUUAAAGAUUCAUGGAGUGUUUUCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACAACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCA
((((....((((.((((.....)))).))))((((....))))....(((.(((((((((........))))))))).)))))))((((((((....)))))..(((.....))).))). ( -40.00)
>DroYak_CAF1 30438 120 - 1
GGUAACUGGUGAUUCUUCAUUAAAGAUUCAUGUAGUGUUUUCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACAACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCA
((((((((((((.((((.....)))).)))).))))...........(((.(((((((((........))))))))).)))))))((((((((....)))))..(((.....))).))). ( -39.30)
>consensus
GGUAACUGGUGAUUCUUCAUUAAAGAUUCAUGGAGUGUUUUCCUUUUGUCUUUGUCGAUGGCCAACUGCAUCGACGACGGCUGCUGGCGGUGCUGCUGCGCCAAUCUUCAAUGGAAGCCA
.......(((.....((((((.((((((.............((....(((.(((((((((........))))))))).)))....)).(((((....))))))))))).)))))).))). (-37.36 = -37.12 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:11:22 2006