Locus 8391

Sequence ID	X_DroMel_CAF1
Location	20,826,040 – 20,826,159
Length	119
Max. P	0.929124

overview

Window 9

Location	20,826,040 – 20,826,159
Length	119
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	95.54
Mean single sequence MFE	-41.27
Consensus MFE	-39.30
Energy contribution	-39.17
Covariance contribution	-0.12
Combinations/Pair	1.05
Mean z-score	-1.97
Structure conservation index	0.95
SVM decision value	1.20
SVM RNA-class probability	0.929124
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20826040 119 + 22224390
CUGUAAUACUUUAAAUGCGGCAGGCAUCGAAUGACAUUUGCACUUUUGCUGCCACUGUGCCCGCACAGUGGGACGAACUU-UUGGAUCCGUUCCCGGUUGUUGUGUUUGCCGUACGUGAU
..........(((..((((((((((((..((..((.........((((.(.((((((((....)))))))).)))))...-..(((.....)))..))..))))))))))))))..))). ( -40.10)
>DroSec_CAF1 3274 119 + 1
CCGUAAUACUUUAAAUGCGGCAGGCAUCGAAUGACAUUUGCACUUUUGCUGCCACUGUGCCUGCACAGUGGGGCGAACUU-UUGGAUCCGUUCCCGGUUGUUGUGUUUGCCGUACGUGAU
..........(((..((((((((((((..((..((.........((((((.((((((((....))))))))))))))...-..(((.....)))..))..))))))))))))))..))). ( -43.90)
>DroEre_CAF1 19964 120 + 1
CCGAAAUACUUUAAAUGCGGCAGGCAUCGAAUGACAUUUGCACUUUUGCUGCCACUGUGCCCGCACAGUGGGACGAACUUUUUGGAUCAGUUCCCGGCUGUUGUGUUUGCCGUACGUGAC
..........(((..((((((((((((.....((((...(((....))).(((((((((....))))))(((((((.((....)).)).))))).)))))))))))))))))))..))). ( -40.10)
>DroYak_CAF1 21337 119 + 1
CCGUAAUACUUUAAAUGCGGCAGGCAUCGAAUGACAUUUGCACUUUUGCUGCCACUGUGCCGGCACAGUGGGACGAACUU-UCGGAUCCGUUCCCGGUUGUUAUGUUUGCCGUACGUGAU
..........(((..((((((((((((((..........(((....)))..((((((((....))))))))..))(((..-((((........))))..)))))))))))))))..))). ( -41.00)
>consensus
CCGUAAUACUUUAAAUGCGGCAGGCAUCGAAUGACAUUUGCACUUUUGCUGCCACUGUGCCCGCACAGUGGGACGAACUU_UUGGAUCCGUUCCCGGUUGUUGUGUUUGCCGUACGUGAU
..........(((..((((((((((((..((((((.........((((.(.((((((((....)))))))).)))))......(((.....)))..))))))))))))))))))..))). (-39.30 = -39.17 +  -0.12)

alignment

secondary structure

dotplot

Window 0

Location	20,826,040 – 20,826,159
Length	119
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.54
Mean single sequence MFE	-35.27
Consensus MFE	-30.90
Energy contribution	-32.02
Covariance contribution	1.13
Combinations/Pair	1.03
Mean z-score	-1.53
Structure conservation index	0.88
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20826040 119 - 22224390
AUCACGUACGGCAAACACAACAACCGGGAACGGAUCCAA-AAGUUCGUCCCACUGUGCGGGCACAGUGGCAGCAAAAGUGCAAAUGUCAUUCGAUGCCUGCCGCAUUUAAAGUAUUACAG
.....(((..((.............((((.(((((....-..)))))))))..(((((((((((((((((((((....)))...))))))).).)))))).))))......))..))).. ( -35.20)
>DroSec_CAF1 3274 119 - 1
AUCACGUACGGCAAACACAACAACCGGGAACGGAUCCAA-AAGUUCGCCCCACUGUGCAGGCACAGUGGCAGCAAAAGUGCAAAUGUCAUUCGAUGCCUGCCGCAUUUAAAGUAUUACGG
....((((.(((.(((.......(((....)))......-..))).)))....(((((((((((((((((((((....)))...))))))).).)))))).))))..........)))). ( -35.86)
>DroEre_CAF1 19964 120 - 1
GUCACGUACGGCAAACACAACAGCCGGGAACUGAUCCAAAAAGUUCGUCCCACUGUGCGGGCACAGUGGCAGCAAAAGUGCAAAUGUCAUUCGAUGCCUGCCGCAUUUAAAGUAUUUCGG
(((.((((((((..........)))(((((((.........)))...))))...))))))))...(((((((((..(((((....).))))...)).)))))))................ ( -34.80)
>DroYak_CAF1 21337 119 - 1
AUCACGUACGGCAAACAUAACAACCGGGAACGGAUCCGA-AAGUUCGUCCCACUGUGCCGGCACAGUGGCAGCAAAAGUGCAAAUGUCAUUCGAUGCCUGCCGCAUUUAAAGUAUUACGG
....(((((((((..(((.....(((....)))...(((-(........((((((((....))))))))..(((....)))........)))))))..)))))............)))). ( -35.20)
>consensus
AUCACGUACGGCAAACACAACAACCGGGAACGGAUCCAA_AAGUUCGUCCCACUGUGCGGGCACAGUGGCAGCAAAAGUGCAAAUGUCAUUCGAUGCCUGCCGCAUUUAAAGUAUUACGG
....((((..((.............((((.(((((.......)))))))))..(((((((((((((((((((((....)))...))))))).).)))))).))))......))..)))). (-30.90 = -32.02 +   1.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:48 2006