Locus 7510

Sequence ID	X_DroMel_CAF1
Location	18,740,847 – 18,740,944
Length	97
Max. P	0.994627

overview

Window 9

Location	18,740,847 – 18,740,944
Length	97
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	72.76
Mean single sequence MFE	-21.74
Consensus MFE	-7.42
Energy contribution	-8.28
Covariance contribution	0.86
Combinations/Pair	1.24
Mean z-score	-2.04
Structure conservation index	0.34
SVM decision value	0.17
SVM RNA-class probability	0.614663
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18740847 97 + 22224390
GAAAU----UGUCAGACGACAAACGGCAUAUAAAUG----GAUAUAUAUG--UACAUUUGUAUCUGAGGAAUCCUCCGAUUCCACCUCCGCCAAUCCGUCUGAUUUG
.....----.((((((((......((((((((((((----.(((....))--).)))))))))....((((((....))))))......)))....))))))))... ( -28.40)
>DroSec_CAF1 808 94 + 1
GAAAU----UGUCAGACGACAAACGGCAUAUAAAUG----G---UAUAUA--UACAUUUGUAUCUGAGGAAUCCUCCGAUUCCACCUCCCUCAAUCCGUCUGAUUUG
.....----.((((((((.....(((.(((((((((----.---......--..)))))))))))).((((((....)))))).............))))))))... ( -28.40)
>DroSim_CAF1 8419 97 + 1
GAAAU----UGUCAGACGACAAACGGCAUAUAAAUG----GGUAUAUAUG--UACAUUUGUAUCUGAGGAAUCCUCCGAUUCCACCUCCCUCAAUCCGUCUGAUUUG
.....----.((((((((.....(((.(((((((((----..((....))--..)))))))))))).((((((....)))))).............))))))))... ( -28.60)
>DroEre_CAF1 8860 93 + 1
GAAAU----UGGCAGACAACAAACGGCAUAUAAAUG----GGUAUAUAUG--UAU----AUAUAUAAGAAAACCUCCGAUCCCACCUCCCCCAAUCCGUCUGAUUUG
.....----...(((((..(....).........((----(((((((((.--...----))))))).((.....)).............))))....)))))..... ( -11.40)
>DroYak_CAF1 9802 99 + 1
GAGAU----UGUCAGACAACAAAUGGCAUAAAAAUG----GAUAUAUAUAUGUAUAGGAAUAUAUAAGAAACCCAGCGAUUUCACCCCCCUCAAUUCGUCUGAUUUG
.....----.(((((((...................----....(((((((........))))))).((((........))))..............)))))))... ( -14.00)
>DroAna_CAF1 8147 93 + 1
GAAAUUAUUUGUCAGACGGC------CAUAAAAAAAAUAUGGCCUUUUUG--UACAUUUUUUUUAUUGGU------UUAUUUUAUUUUCCCGCUGCUGUCUGAUUUG
..........((((((((((------.(((((((((((...((......)--)..))))))))))).((.------.............))...))))))))))... ( -19.64)
>consensus
GAAAU____UGUCAGACGACAAACGGCAUAUAAAUG____GGUAUAUAUG__UACAUUUGUAUCUGAGGAAUCCUCCGAUUCCACCUCCCCCAAUCCGUCUGAUUUG
..........(((((((.........((((((............)))))).................((((........))))..............)))))))... ( -7.42 =  -8.28 +   0.86)

alignment

secondary structure

dotplot

Window 0

Location	18,740,847 – 18,740,944
Length	97
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	72.76
Mean single sequence MFE	-25.61
Consensus MFE	-13.76
Energy contribution	-14.73
Covariance contribution	0.98
Combinations/Pair	1.42
Mean z-score	-2.55
Structure conservation index	0.54
SVM decision value	2.50
SVM RNA-class probability	0.994627
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18740847 97 - 22224390
CAAAUCAGACGGAUUGGCGGAGGUGGAAUCGGAGGAUUCCUCAGAUACAAAUGUA--CAUAUAUAUC----CAUUUAUAUGCCGUUUGUCGUCUGACA----AUUUC
....((((((((..(((((.((((((((((.((((...)))).)))....((((.--...)))).))----)))))...)))))....))))))))..----..... ( -31.30)
>DroSec_CAF1 808 94 - 1
CAAAUCAGACGGAUUGAGGGAGGUGGAAUCGGAGGAUUCCUCAGAUACAAAUGUA--UAUAUA---C----CAUUUAUAUGCCGUUUGUCGUCUGACA----AUUUC
....(((((((...........(.((((((....)))))).)....(((((((((--((((..---.----....)))))).))))))))))))))..----..... ( -27.20)
>DroSim_CAF1 8419 97 - 1
CAAAUCAGACGGAUUGAGGGAGGUGGAAUCGGAGGAUUCCUCAGAUACAAAUGUA--CAUAUAUACC----CAUUUAUAUGCCGUUUGUCGUCUGACA----AUUUC
....(((((((...........(.((((((....)))))).)....(((((((..--((((((....----....)))))).))))))))))))))..----..... ( -27.40)
>DroEre_CAF1 8860 93 - 1
CAAAUCAGACGGAUUGGGGGAGGUGGGAUCGGAGGUUUUCUUAUAUAU----AUA--CAUAUAUACC----CAUUUAUAUGCCGUUUGUUGUCUGCCA----AUUUC
.....(((((((..(((.(.(((((((...((((...))))(((((((----...--.)))))))))----)))))...).)))....)))))))...----..... ( -21.50)
>DroYak_CAF1 9802 99 - 1
CAAAUCAGACGAAUUGAGGGGGGUGAAAUCGCUGGGUUUCUUAUAUAUUCCUAUACAUAUAUAUAUC----CAUUUUUAUGCCAUUUGUUGUCUGACA----AUCUC
....((((((((...((..((.((((((....(((((....(((((((........))))))).)))----)).)))))).)).))..))))))))..----..... ( -24.90)
>DroAna_CAF1 8147 93 - 1
CAAAUCAGACAGCAGCGGGAAAAUAAAAUAA------ACCAAUAAAAAAAAUGUA--CAAAAAGGCCAUAUUUUUUUUAUG------GCCGUCUGACAAAUAAUUUC
....((((((......((.............------.))...............--......(((((((.......))))------)))))))))........... ( -21.34)
>consensus
CAAAUCAGACGGAUUGAGGGAGGUGGAAUCGGAGGAUUCCUCAGAUACAAAUGUA__CAUAUAUACC____CAUUUAUAUGCCGUUUGUCGUCUGACA____AUUUC
....((((((((...((.((....((((((....)))))).................((((((............)))))))).))..))))))))........... (-13.76 = -14.73 +   0.98)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:43 2006