Locus 4096

Sequence ID	X_DroMel_CAF1
Location	10,805,871 – 10,805,961
Length	90
Max. P	0.583001

overview

Window 2

Location	10,805,871 – 10,805,961
Length	90
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	82.25
Mean single sequence MFE	-40.15
Consensus MFE	-30.85
Energy contribution	-31.52
Covariance contribution	0.67
Combinations/Pair	1.17
Mean z-score	-1.39
Structure conservation index	0.77
SVM decision value	0.10
SVM RNA-class probability	0.583001
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10805871 90 + 22224390
CAUUGAAUGUGCCGCUGGAGCGCCUGGAAUCCCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG---UGGAUGGCGG---AUCACGACAGAAUG
.......(((((((((...((((((((.......))))))))(((((..((.......))..))))---)....)))))---..))))........ ( -37.20)
>DroVir_CAF1 19734 87 + 1
CGCUGAACGUGCCGCUGGAGCGUCUGGAGUCGCGCCAGGCGCAUGCCCAGCGCCAGGAGCACGCCCAUUCCAAUGGCA---------ACCAGGAGG
.((((..((((((.((((.(((.(....).))).))))).)))))..))))((((((((........))))..)))).---------......... ( -34.50)
>DroSec_CAF1 21186 90 + 1
CAUUGAAUGUGCCGCUGGAGCGCCUGGAAUCCCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG---UGGAUGGCGG---AUCACGGCAGAUUG
.....(((.(((((.(((.((((((((.......)))))))).((((..((((..((....)))))---)....)))).---.)))))))).))). ( -41.20)
>DroEre_CAF1 26395 90 + 1
CCUUGAAUGUGCCGCUGGAGCGCCUGGAAUCCCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG---UGGAUGGGGG---AUUGCGGCAGAAUG
.......(.((((((....((((((((.......)))))))).(.((((.(((..((....))..)---))..)))).)---...)))))).)... ( -41.60)
>DroYak_CAF1 25105 90 + 1
CUUUGAAUGUGCCGCUGGAGCGCCUGGAAUCCCGCCAGGCGCACGCCCAGCGCACCGAGCACGGCG---UGGAUGGAGG---AUCACGGCAGAGUG
.......(.(((((.(((.((((((((.......))))))))....(((.(((.(((....))).)---))..)))...---.)))))))).)... ( -38.20)
>DroAna_CAF1 21902 93 + 1
CCCUAAAUGUGCCGCUGGAGCGCCUGGAGUCCCGCCAGGCGCACAACCAGCGCAACGAGCACGGCG---UGGAGGGCUCCUCCUCCCGCCAGAACG
........((((((((((.((((((((.......))))))))....))))))......))))((((---.((((((....))))))))))...... ( -48.20)
>consensus
CAUUGAAUGUGCCGCUGGAGCGCCUGGAAUCCCGCCAGGCGCACGCCCAGCGCAACGAGCACGGCG___UGGAUGGCGG___AUCACGGCAGAAUG
((((.(...(((((((((.((((((((.......))))))))....)))))((.....))..))))...).))))..................... (-30.85 = -31.52 +   0.67)

alignment

secondary structure

dotplot

Window 3

Location	10,805,871 – 10,805,961
Length	90
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	82.25
Mean single sequence MFE	-40.65
Consensus MFE	-29.97
Energy contribution	-30.30
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.34
Structure conservation index	0.74
SVM decision value	-0.00
SVM RNA-class probability	0.533464
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10805871 90 - 22224390
CAUUCUGUCGUGAU---CCGCCAUCCA---CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGGGAUUCCAGGCGCUCCAGCGGCACAUUCAAUG
.........(((..---((((.....(---((((((((.....))))..)))))((((((((.......))))))))....)))))))........ ( -37.50)
>DroVir_CAF1 19734 87 - 1
CCUCCUGGU---------UGCCAUUGGAAUGGGCGUGCUCCUGGCGCUGGGCAUGCGCCUGGCGCGACUCCAGACGCUCCAGCGGCACGUUCAGCG
..((((((.---------..)))..))).((((((((((.((((.((..(((....)))..))(((........))).)))).))))))))))... ( -39.20)
>DroSec_CAF1 21186 90 - 1
CAAUCUGCCGUGAU---CCGCCAUCCA---CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGGGAUUCCAGGCGCUCCAGCGGCACAUUCAAUG
.(((.((((((...---.((((((((.---((((((((.....)))).((((....))))))))))))....)))).....)))))).)))..... ( -39.70)
>DroEre_CAF1 26395 90 - 1
CAUUCUGCCGCAAU---CCCCCAUCCA---CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGGGAUUCCAGGCGCUCCAGCGGCACAUUCAAGG
.....((((((...---.........(---((((((((.....))))..)))))((((((((.......))))))))....))))))......... ( -40.50)
>DroYak_CAF1 25105 90 - 1
CACUCUGCCGUGAU---CCUCCAUCCA---CGCCGUGCUCGGUGCGCUGGGCGUGCGCCUGGCGGGAUUCCAGGCGCUCCAGCGGCACAUUCAAAG
.....((((((...---.........(---((((((((.....))))..)))))((((((((.......))))))))....))))))......... ( -38.20)
>DroAna_CAF1 21902 93 - 1
CGUUCUGGCGGGAGGAGGAGCCCUCCA---CGCCGUGCUCGUUGCGCUGGUUGUGCGCCUGGCGGGACUCCAGGCGCUCCAGCGGCACAUUUAGGG
......(((((((((......))))).---))))((((......((((((....((((((((.......)))))))).))))))))))........ ( -48.80)
>consensus
CAUUCUGCCGUGAU___CCGCCAUCCA___CGCCGUGCUCGUUGCGCUGGGCGUGCGCCUGGCGGGAUUCCAGGCGCUCCAGCGGCACAUUCAAGG
...............................(((..((.....))(((((....((((((((.......)))))))).)))))))).......... (-29.97 = -30.30 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:15 2006