Locus 963

Sequence ID	X_DroMel_CAF1
Location	2,739,679 – 2,739,773
Length	94
Max. P	0.885002

overview

Window 3

Location	2,739,679 – 2,739,773
Length	94
Sequences	6
Columns	94
Reading direction	forward
Mean pairwise identity	84.61
Mean single sequence MFE	-30.54
Consensus MFE	-23.97
Energy contribution	-24.13
Covariance contribution	0.17
Combinations/Pair	1.06
Mean z-score	-2.30
Structure conservation index	0.78
SVM decision value	0.54
SVM RNA-class probability	0.773795
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2739679 94 + 22224390
GCAAGGAAAACAGGGCAAAAAAAUUUACCGCUCACCAGCGAGAGGUCGCUGGAAAGGGCCGUGGCCCAAAUCAGGACCAGGAUCAUCCCGAAUC
....((......((((.............)))).(((((((....)))))))...((((....)))).........)).((......))..... ( -27.82)
>DroPse_CAF1 193522 94 + 1
CGGGGGCUAGGAUUAAAAAAAAAUUUACCGCUCACCAGCGAGAGGUCGCUGGAAAGGGCGAUGGCCCAAACCAGGACCAGGAUCGUCCAGAAUC
.(((((((((((((.......)))))..(((((.(((((((....)))))))...))))).))))))...)).((((.......))))...... ( -33.30)
>DroEre_CAF1 143116 94 + 1
ACUAGCAAAACAGGGCAAAAAAAUUUACCGCUCACCAGCGUGAGGUCGCUGGAAAGGGCCGUGGCCCAAAACAGGACCAGGAUCAUCCCGAAUC
............(((.........((((.(((....)))))))((((.(((....((((....))))....)))))))........)))..... ( -27.60)
>DroYak_CAF1 137243 94 + 1
ACAAGCAAACCAGAGCAAAAAAAUUUACCGCUCACCAGCGCGAGGUCGCUGGAAAGGGCCGUGGCCCAAAUCAGGACCAGGAUCAUCCCGAAUC
.........((.((((.............)))).((((((......))))))...((((....))))......))....((......))..... ( -26.82)
>DroAna_CAF1 223395 94 + 1
UUGGGGAAGUGUUGGUAAAAAAAUUUACCGCUCACCAGCGAGAGGUCACUGGUAAAGGCCAUGGCCCCGACCAGGACCAGGAUCAUCCCGAAUC
((((((..(((.(((((((....)))))))..)))........((((.(((((...(((....)))...))))))))).......))))))... ( -36.40)
>DroPer_CAF1 213998 94 + 1
CGGGGGCAAGGAUUAAAAAAAAAUUUACCGCUCACCAGCGAGAGGUCGCUGGAAAGGGCGAUGGCCCAGACCAGGACCAGGAUCGUCCAGAAUC
.((((((..(((((.......)))))..(((((.(((((((....)))))))...)))))...))))...)).((((.......))))...... ( -31.30)
>consensus
ACGAGGAAAACAGGGCAAAAAAAUUUACCGCUCACCAGCGAGAGGUCGCUGGAAAGGGCCAUGGCCCAAACCAGGACCAGGAUCAUCCCGAAUC
............................((((....))))...((((.((((...((((....))))...)))))))).((.....))...... (-23.97 = -24.13 +   0.17)

alignment

secondary structure

dotplot

Window 4

Location	2,739,679 – 2,739,773
Length	94
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	84.61
Mean single sequence MFE	-33.10
Consensus MFE	-27.79
Energy contribution	-27.52
Covariance contribution	-0.28
Combinations/Pair	1.10
Mean z-score	-2.28
Structure conservation index	0.84
SVM decision value	0.93
SVM RNA-class probability	0.885002
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2739679 94 - 22224390
GAUUCGGGAUGAUCCUGGUCCUGAUUUGGGCCACGGCCCUUUCCAGCGACCUCUCGCUGGUGAGCGGUAAAUUUUUUUGCCCUGUUUUCCUUGC
...(((((((.......)))))))...((((....))))...(((((((....)))))))..((.((((((....))))))))........... ( -33.50)
>DroPse_CAF1 193522 94 - 1
GAUUCUGGACGAUCCUGGUCCUGGUUUGGGCCAUCGCCCUUUCCAGCGACCUCUCGCUGGUGAGCGGUAAAUUUUUUUUUAAUCCUAGCCCCCG
......((..((....((((((((...((((....))))...)))).))))..))(((((.((....((((......)))).)))))))..)). ( -30.70)
>DroEre_CAF1 143116 94 - 1
GAUUCGGGAUGAUCCUGGUCCUGUUUUGGGCCACGGCCCUUUCCAGCGACCUCACGCUGGUGAGCGGUAAAUUUUUUUGCCCUGUUUUGCUAGU
.....(((.....)))(((((((....((((....))))....))).))))....(((((..((.((((((....))))))....))..))))) ( -33.00)
>DroYak_CAF1 137243 94 - 1
GAUUCGGGAUGAUCCUGGUCCUGAUUUGGGCCACGGCCCUUUCCAGCGACCUCGCGCUGGUGAGCGGUAAAUUUUUUUGCUCUGGUUUGCUUGU
...(((((((.......)))))))...((((....))))...((((((......)))))).((((((.........))))))............ ( -31.80)
>DroAna_CAF1 223395 94 - 1
GAUUCGGGAUGAUCCUGGUCCUGGUCGGGGCCAUGGCCUUUACCAGUGACCUCUCGCUGGUGAGCGGUAAAUUUUUUUACCAACACUUCCCCAA
.....((((.(.....(((((((((..((((....))))..))))).))))....(((....)))((((((....))))))....).))))... ( -38.00)
>DroPer_CAF1 213998 94 - 1
GAUUCUGGACGAUCCUGGUCCUGGUCUGGGCCAUCGCCCUUUCCAGCGACCUCUCGCUGGUGAGCGGUAAAUUUUUUUUUAAUCCUUGCCCCCG
......((.(((....((((((((...((((....))))...)))).))))..)))..((..((.((((((......))).)))))..)).)). ( -31.60)
>consensus
GAUUCGGGAUGAUCCUGGUCCUGGUUUGGGCCACGGCCCUUUCCAGCGACCUCUCGCUGGUGAGCGGUAAAUUUUUUUGCCAUCCUUUCCCCGG
......((.....))((((((......))))))..((((((.((((((......)))))).))).))).......................... (-27.79 = -27.52 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:58:14 2006