Locus 335

Sequence ID	X_DroMel_CAF1
Location	1,055,031 – 1,055,122
Length	91
Max. P	0.998597

overview

Window 0

Location	1,055,031 – 1,055,122
Length	91
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	91.41
Mean single sequence MFE	-28.92
Consensus MFE	-25.76
Energy contribution	-27.24
Covariance contribution	1.48
Combinations/Pair	1.06
Mean z-score	-2.27
Structure conservation index	0.89
SVM decision value	3.15
SVM RNA-class probability	0.998597
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1055031 91 + 22224390
UUUCUGCAGUUUUUGGCCGCAUAACGGGGCAUGGAUAGCCAUGGCUAUAUGU--AUCUAUGUACCUAUGGCAAUCGCACUCGACUGCUGACAA
..((.((((((....(((.(.....).))).(((((.(((((((.((((((.--...)))))).))))))).))).))...)))))).))... ( -31.30)
>DroSec_CAF1 3975 93 + 1
UUUGUGCAGUUUUUGGCCGCAUAACGGGGCAUGGAUAGCCAUGGCUAUAUGUAUAUCUAUGUACCUAUGGCAAUCGCACUCGACUGCUGACAA
.((((.((((..((((((.(.....).))).(((((.(((((((.((((((......)))))).))))))).))).))..)))..)))))))) ( -31.00)
>DroSim_CAF1 4910 93 + 1
UUUCUGCAGUUUUUGGCCGCAUAACGGGGCAUGGAUAGCCAUGGCUAUAUGUAUAUCUAUGUACCUAUGGCAAUCGCACUCGACUGCUGACAA
..((.((((((....(((.(.....).))).(((((.(((((((.((((((......)))))).))))))).))).))...)))))).))... ( -31.50)
>DroEre_CAF1 3998 87 + 1
UUUUUGCAGCUUUUGGCCGCACAACGGGGCAUGGAUAGCCAUUGCAAU------AUCUACGUACCUAUGGCAAUCGCACUCGACUGCUGACAA
...(((((((..((((((.(.....).))).(((((.((((((((...------......)))...))))).))).))..)))..)))).))) ( -23.10)
>DroYak_CAF1 6536 87 + 1
UUUCUGCAGUUUUUGGCCGCAUUGCGGGGCAUGGAUAGCCAUGGCUAU------AUCUAUGUACCUAUGGCAAUCGCACUCACCUGCUGACAA
....((((((...(((..(((((((((((((((((((((....)))).------.))))))).)))...))))).))..)))...)))).)). ( -27.70)
>consensus
UUUCUGCAGUUUUUGGCCGCAUAACGGGGCAUGGAUAGCCAUGGCUAUAUGU__AUCUAUGUACCUAUGGCAAUCGCACUCGACUGCUGACAA
....((((((..((((((.(.....).))).(((((.(((((((.((((((......)))))).))))))).))).))..)))..)))).)). (-25.76 = -27.24 +   1.48)

alignment

secondary structure

dotplot

Window 1

Location	1,055,031 – 1,055,122
Length	91
Sequences	5
Columns	93
Reading direction	reverse
Mean pairwise identity	91.41
Mean single sequence MFE	-24.52
Consensus MFE	-21.65
Energy contribution	-21.77
Covariance contribution	0.12
Combinations/Pair	1.09
Mean z-score	-1.23
Structure conservation index	0.88
SVM decision value	0.14
SVM RNA-class probability	0.603100
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1055031 91 - 22224390
UUGUCAGCAGUCGAGUGCGAUUGCCAUAGGUACAUAGAU--ACAUAUAGCCAUGGCUAUCCAUGCCCCGUUAUGCGGCCAAAAACUGCAGAAA
......(((((...(((.(((.(((((.(((..(((...--...))).)))))))).))))))...(((.....)))......)))))..... ( -24.30)
>DroSec_CAF1 3975 93 - 1
UUGUCAGCAGUCGAGUGCGAUUGCCAUAGGUACAUAGAUAUACAUAUAGCCAUGGCUAUCCAUGCCCCGUUAUGCGGCCAAAAACUGCACAAA
((((..(((((...(((.(((.(((((.(((..(((........))).)))))))).))))))...(((.....)))......))))))))). ( -24.40)
>DroSim_CAF1 4910 93 - 1
UUGUCAGCAGUCGAGUGCGAUUGCCAUAGGUACAUAGAUAUACAUAUAGCCAUGGCUAUCCAUGCCCCGUUAUGCGGCCAAAAACUGCAGAAA
......(((((...(((.(((.(((((.(((..(((........))).)))))))).))))))...(((.....)))......)))))..... ( -24.10)
>DroEre_CAF1 3998 87 - 1
UUGUCAGCAGUCGAGUGCGAUUGCCAUAGGUACGUAGAU------AUUGCAAUGGCUAUCCAUGCCCCGUUGUGCGGCCAAAAGCUGCAAAAA
......(((((((....)))))))....((..(((.(((------(..((....)))))).)))..))....((((((.....)))))).... ( -24.90)
>DroYak_CAF1 6536 87 - 1
UUGUCAGCAGGUGAGUGCGAUUGCCAUAGGUACAUAGAU------AUAGCCAUGGCUAUCCAUGCCCCGCAAUGCGGCCAAAAACUGCAGAAA
...((.((.((.(.(((.(((.(((((.(((........------...)))))))).)))))).))).))..(((((.......))))))).. ( -24.90)
>consensus
UUGUCAGCAGUCGAGUGCGAUUGCCAUAGGUACAUAGAU__ACAUAUAGCCAUGGCUAUCCAUGCCCCGUUAUGCGGCCAAAAACUGCAGAAA
......(((((...(((.(((.(((((.(((.................)))))))).))))))...((((...))))......)))))..... (-21.65 = -21.77 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:42:03 2006