Locus 7564

Sequence ID	X_DroMel_CAF1
Location	18,834,592 – 18,834,689
Length	97
Max. P	0.938531

overview

Window 8

Location	18,834,592 – 18,834,689
Length	97
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	78.50
Mean single sequence MFE	-25.06
Consensus MFE	-16.87
Energy contribution	-17.76
Covariance contribution	0.89
Combinations/Pair	1.26
Mean z-score	-2.06
Structure conservation index	0.67
SVM decision value	1.27
SVM RNA-class probability	0.938531
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18834592 97 + 22224390
CACGCACUCGGAAACUAAUUUCAAGUGCGAACUAGCUUGUUGAGCCAUCAGUUGAUGGUAAGGCUUUUAGGGAUAUGAAUUCCUUCUAAAUGGGUUU
..((((((.((((.....)))).))))))....((((..((..((((((....))))))((((..((((......))))..))))...))..)))). ( -27.70)
>DroSec_CAF1 71420 73 + 1
CACGCACUCGGAAACUAAUAUCAAGUGCGAACUAGCUGGUUCGG------------------------AAGGAUAUGAAUUCCUUCCAAAUGGGUUU
..((((((..((........)).))))))....((((.(((.((------------------------(((((.......))))))).))).)))). ( -24.70)
>DroSim_CAF1 51632 97 + 1
CACGCACUCGGAAACUAAUUUCAAGUGCGAACUAGCUUGUUGAGCCAUCAGUUGAUGGUAAGGCUUUUAGGGAUAUGAAUUCCUUCUAAAUGGGUUU
..((((((.((((.....)))).))))))....((((..((..((((((....))))))((((..((((......))))..))))...))..)))). ( -27.70)
>DroEre_CAF1 69193 90 + 1
CACGCACUCGGAAACUAAUUUCAAGUGCGAACUAGCUUGUUGAACCAUUAGUUGAUGGCCCGACUUUUAGGGAUAUGAAUUCCUCAUAAG-------
..((((((.((((.....)))).))))))..((((...((((..(((((....)))))..))))..))))...(((((.....)))))..------- ( -23.70)
>DroYak_CAF1 68375 90 + 1
CACGCACUCGAAAACUAAUUUCAAGUACGAACUAGCUUGUUGAGCCGUCAGUUGAUGGCAAGGCUUUUAGGGAUAUGAAUUCCUCCUAAA-------
..((.(((.((((.....)))).))).))....(((((.....((((((....)))))).)))))...((((((....))))))......------- ( -21.50)
>consensus
CACGCACUCGGAAACUAAUUUCAAGUGCGAACUAGCUUGUUGAGCCAUCAGUUGAUGGCAAGGCUUUUAGGGAUAUGAAUUCCUUCUAAAUGGGUUU
..((((((.((((.....)))).)))))).........(((..((((((....))))))..))).....((((.......))))............. (-16.87 = -17.76 +   0.89)

alignment

secondary structure

dotplot

Window 9

Location	18,834,592 – 18,834,689
Length	97
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	78.50
Mean single sequence MFE	-21.86
Consensus MFE	-13.07
Energy contribution	-13.60
Covariance contribution	0.53
Combinations/Pair	1.10
Mean z-score	-1.76
Structure conservation index	0.60
SVM decision value	0.21
SVM RNA-class probability	0.637105
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18834592 97 - 22224390
AAACCCAUUUAGAAGGAAUUCAUAUCCCUAAAAGCCUUACCAUCAACUGAUGGCUCAACAAGCUAGUUCGCACUUGAAAUUAGUUUCCGAGUGCGUG
.......(((((..(((.......))))))))(((....(((((....)))))........)))....(((((((((((....))).)))))))).. ( -20.50)
>DroSec_CAF1 71420 73 - 1
AAACCCAUUUGGAAGGAAUUCAUAUCCUU------------------------CCGAACCAGCUAGUUCGCACUUGAUAUUAGUUUCCGAGUGCGUG
.......((((((((((.......)))))------------------------)))))..........((((((((...........)))))))).. ( -23.20)
>DroSim_CAF1 51632 97 - 1
AAACCCAUUUAGAAGGAAUUCAUAUCCCUAAAAGCCUUACCAUCAACUGAUGGCUCAACAAGCUAGUUCGCACUUGAAAUUAGUUUCCGAGUGCGUG
.......(((((..(((.......))))))))(((....(((((....)))))........)))....(((((((((((....))).)))))))).. ( -20.50)
>DroEre_CAF1 69193 90 - 1
-------CUUAUGAGGAAUUCAUAUCCCUAAAAGUCGGGCCAUCAACUAAUGGUUCAACAAGCUAGUUCGCACUUGAAAUUAGUUUCCGAGUGCGUG
-------..((((((...)))))).........((.(((((((......))))))).)).........(((((((((((....))).)))))))).. ( -21.40)
>DroYak_CAF1 68375 90 - 1
-------UUUAGGAGGAAUUCAUAUCCCUAAAAGCCUUGCCAUCAACUGACGGCUCAACAAGCUAGUUCGUACUUGAAAUUAGUUUUCGAGUGCGUG
-------((((((.((........))))))))(((...(((.((....)).))).......)))....(((((((((((.....))))))))))).. ( -23.70)
>consensus
AAACCCAUUUAGAAGGAAUUCAUAUCCCUAAAAGCCUUACCAUCAACUGAUGGCUCAACAAGCUAGUUCGCACUUGAAAUUAGUUUCCGAGUGCGUG
........((((..(((.......)))............(((((....))))).........))))..((((((((...........)))))))).. (-13.07 = -13.60 +   0.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:11 2006