Locus 5648

Sequence ID	X_DroMel_CAF1
Location	14,592,121 – 14,592,232
Length	111
Max. P	0.976543

overview

Window 4

Location	14,592,121 – 14,592,232
Length	111
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	77.30
Mean single sequence MFE	-46.13
Consensus MFE	-23.62
Energy contribution	-23.98
Covariance contribution	0.37
Combinations/Pair	1.50
Mean z-score	-2.43
Structure conservation index	0.51
SVM decision value	1.36
SVM RNA-class probability	0.945990
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14592121 111 + 22224390
GAUGAUCCCGUUCAUCUGACCCUUGGCCUCGCUGGCCAGGACCAACGCUUCGAUAGCAUUGAUAUUGCCAUUGGGAUCCUUCACGGCGGCACUUUCAGCAUCCGCGGAGGC
...(((((((...........(((((((.....)))))))..(((.(((.....))).)))..........)))))))((((.(((..((.......))..))).)))).. ( -37.40)
>DroVir_CAF1 71837 111 + 1
AAUGAUGCCAUUCAGCUGGCCCUUGGCCUCGCUGGCCAGGGCCAGCGCCUCGACAGCAUUGAUGUUGCCAUUGGGCUCUCGUAUGGAGCCGUGCUCCGUGUCCGAGCGCGA
..(((......)))(((((((((.((((.....)))))))))))))(((((((.(((.(..(((....)))..)))).)).((((((((...))))))))...))).)).. ( -54.80)
>DroPse_CAF1 78727 111 + 1
AAUGAUGCCAUUCAUUUGACCCUUGGCCUCACUGGCCAAGGCCAGAGCCUCGAUGGCGUUGAUGUUGCCAUUGGGAUCCUUGAUGGAGGCGCGUUCCGCAUCGGUACGCGC
......(((.((((((....((((((((.....))))))))...((..((((((((((.......)))))))))).))...)))))))))((((.(((...))).)))).. ( -48.40)
>DroGri_CAF1 73739 111 + 1
AAUGAUGCCAUUCAACUGACCCUUGGCCUCGCUGGCCAGUACGAGUGCCUCAAUGGCAUUGAUGUUGCCAUUGGUUUCCCGGAACGAGGCAUGCUCCGUAUCCGUGCGCAU
....(((((((............(((((.....)))))(((((.((((((((((((((.......))))))).((((....)))))))))))....)))))..))).)))) ( -41.00)
>DroMoj_CAF1 89739 111 + 1
AAUGAUGCCAUUCAACUGGCCCUUGGCCUCGCUGGCCAGCGCCAGCGCCUCGAUCGCAUUGAUAUUGCCAUUGGCUUCCUUCACGGAGCCGUGCUCCGUGUCCGUGGCAUU
...((((((((......((((..((((..(((((((....)))))))..(((((...)))))....))))..)))).....((((((((...))))))))...)))))))) ( -47.90)
>DroAna_CAF1 101938 111 + 1
AAUAAUGCCGUUCAUUUGACCUUUGGCCUCACUGGCCAGGGCCAAGGCUUCGAUGGCGUUGAUGUUGCCGUUCGGGUCCUUCACGGAAGCCCGCUCCGCGUCCGAGCGGGC
.......((((....(((.((((.((((.....)))))))).)))((((..(((((((.......)))))))..))))....))))..((((((((.......)))))))) ( -47.30)
>consensus
AAUGAUGCCAUUCAUCUGACCCUUGGCCUCGCUGGCCAGGGCCAGCGCCUCGAUGGCAUUGAUGUUGCCAUUGGGAUCCUUCACGGAGGCGCGCUCCGCAUCCGUGCGCGC
...(((((............((((((((.....))))))))...((((((((((.(((.......))).)))((....)).....))))))).....)))))......... (-23.62 = -23.98 +   0.37)

alignment

secondary structure

dotplot

Window 5

Location	14,592,121 – 14,592,232
Length	111
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	77.30
Mean single sequence MFE	-46.47
Consensus MFE	-23.99
Energy contribution	-24.55
Covariance contribution	0.56
Combinations/Pair	1.48
Mean z-score	-2.67
Structure conservation index	0.52
SVM decision value	1.77
SVM RNA-class probability	0.976543
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14592121 111 - 22224390
GCCUCCGCGGAUGCUGAAAGUGCCGCCGUGAAGGAUCCCAAUGGCAAUAUCAAUGCUAUCGAAGCGUUGGUCCUGGCCAGCGAGGCCAAGGGUCAGAUGAACGGGAUCAUC
..((.(((((..((.......))..))))).))((((((..((((...(((((((((.....)))))))))(((((((.....)))).))))))).......))))))... ( -43.50)
>DroVir_CAF1 71837 111 - 1
UCGCGCUCGGACACGGAGCACGGCUCCAUACGAGAGCCCAAUGGCAACAUCAAUGCUGUCGAGGCGCUGGCCCUGGCCAGCGAGGCCAAGGGCCAGCUGAAUGGCAUCAUU
..(((((.......(((((...)))))...(((.(((...(((....)))....))).))).)))(((((((((((((.....)))).)))))))))......))...... ( -52.90)
>DroPse_CAF1 78727 111 - 1
GCGCGUACCGAUGCGGAACGCGCCUCCAUCAAGGAUCCCAAUGGCAACAUCAACGCCAUCGAGGCUCUGGCCUUGGCCAGUGAGGCCAAGGGUCAAAUGAAUGGCAUCAUU
((((((.(((...))).))))))..((((((..(((((...((((....(((..(((.....))).(((((....)))))))).)))).)))))...)).))))....... ( -44.90)
>DroGri_CAF1 73739 111 - 1
AUGCGCACGGAUACGGAGCAUGCCUCGUUCCGGGAAACCAAUGGCAACAUCAAUGCCAUUGAGGCACUCGUACUGGCCAGCGAGGCCAAGGGUCAGUUGAAUGGCAUCAUU
((((((.(((.((((.((..((((((.....((....))(((((((.......))))))))))))))))))))))))((((..((((...)))).))))....)))).... ( -43.00)
>DroMoj_CAF1 89739 111 - 1
AAUGCCACGGACACGGAGCACGGCUCCGUGAAGGAAGCCAAUGGCAAUAUCAAUGCGAUCGAGGCGCUGGCGCUGGCCAGCGAGGCCAAGGGCCAGUUGAAUGGCAUCAUU
.((((((....((((((((...))))))))......(((.((.(((.......))).))...)))((((((.((((((.....)))).)).))))))....)))))).... ( -49.50)
>DroAna_CAF1 101938 111 - 1
GCCCGCUCGGACGCGGAGCGGGCUUCCGUGAAGGACCCGAACGGCAACAUCAACGCCAUCGAAGCCUUGGCCCUGGCCAGUGAGGCCAAAGGUCAAAUGAACGGCAUUAUU
((((((((.......))))))))..((((.((((...(((..(((.........))).)))...))))((((.(((((.....)))))..))))......))))....... ( -45.00)
>consensus
GCGCGCACGGACACGGAGCACGCCUCCGUGAAGGAACCCAAUGGCAACAUCAAUGCCAUCGAGGCGCUGGCCCUGGCCAGCGAGGCCAAGGGUCAGAUGAAUGGCAUCAUU
....((.((...........((((((......(....)..((((((.......)))))).))))))((((((((((((.....)))).)))))))).....))))...... (-23.99 = -24.55 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:09 2006