Locus 3567

Sequence ID	3R_DroMel_CAF1
Location	9,667,925 – 9,668,045
Length	120
Max. P	0.992210

overview

Window 1

Location	9,667,925 – 9,668,045
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.17
Mean single sequence MFE	-36.74
Consensus MFE	-35.84
Energy contribution	-35.64
Covariance contribution	-0.20
Combinations/Pair	1.06
Mean z-score	-1.36
Structure conservation index	0.98
SVM decision value	0.87
SVM RNA-class probability	0.870796
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9667925 120 + 27905053
AGACGUCGACGCGUCAGUCCUCCAAUUUCGGAGGCGCGCUGGCAACACUUUCGGGCCACCAAAUCAAAUCGUGUGCUGUUUAUUUAAAUAACCAUAAUUUGGCGCACCAUCGAGGGCCCU
.(((((....))))).((((((.......((.(((.((.((....))....)).))).))..........((((((((.((((..........))))..))))))))....))))))... ( -37.00)
>DroSec_CAF1 59736 120 + 1
AGACGUCGACGCGUCAGUCCUCCAAUUUCGGAGGCGCGCUGGCAACACUUUCGGGCCACCAAAUCAAAUCGUGUGCUGUUUAUUUAAAUAACCAUAAUUUGGCGCACCAUCGAGGACCCU
.(((((....))))).((((((.......((.(((.((.((....))....)).))).))..........((((((((.((((..........))))..))))))))....))))))... ( -37.60)
>DroSim_CAF1 62638 120 + 1
AGACGUCGACGCGUCAGUCCUCCAAUUUCGGAGGCGCGCUGGCAACACUUUCGGGCCACCAAAUCAAAUCGUGUGCUGUUUAUUUAAAUAACCAUAAUUUGGCGCACCAUCGAGGGCCCU
.(((((....))))).((((((.......((.(((.((.((....))....)).))).))..........((((((((.((((..........))))..))))))))....))))))... ( -37.00)
>DroEre_CAF1 60480 118 + 1
AGACGUCGACGCGUCAGUCCUGCAAUUUCGGAGGCGCGCUGGCAACACUUUUGGGCCACCAAAUCAAAUCGUGUGCUGUUUAUUUAAAUAACCAUAAUUUGGCGCACCAUCGAGGGCC--
.(((((....))))).((((.......(((..((.((((((....))..(((((....))))).(((((..((.(.(((((....))))).)))..))))))))).))..))))))).-- ( -35.41)
>DroYak_CAF1 64447 120 + 1
AGACGUCGACGCGUCAGUCCUCCAAUUUCGGAGGCGCGCUGGCAACACUUUUGGGCCACCAAAUCAAAUCGUGUGCUGUUUAUUUAAAUAACCAUAAUUUGGCGCACCAUCGAGGGCCCU
....((((.((((.....(((((......))))))))).)))).........(((((...........(((.(((((((((....))))).(((.....))).))))...))).))))). ( -36.70)
>consensus
AGACGUCGACGCGUCAGUCCUCCAAUUUCGGAGGCGCGCUGGCAACACUUUCGGGCCACCAAAUCAAAUCGUGUGCUGUUUAUUUAAAUAACCAUAAUUUGGCGCACCAUCGAGGGCCCU
.(((((....))))).((((((.......((.(((.((.((....))....)).))).))..........((((((((.((((..........))))..))))))))....))))))... (-35.84 = -35.64 +  -0.20)

alignment

secondary structure

dotplot

Window 2

Location	9,667,925 – 9,668,045
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.17
Mean single sequence MFE	-42.18
Consensus MFE	-39.66
Energy contribution	-39.90
Covariance contribution	0.24
Combinations/Pair	1.02
Mean z-score	-1.93
Structure conservation index	0.94
SVM decision value	2.31
SVM RNA-class probability	0.992210
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9667925 120 - 27905053
AGGGCCCUCGAUGGUGCGCCAAAUUAUGGUUAUUUAAAUAAACAGCACACGAUUUGAUUUGGUGGCCCGAAAGUGUUGCCAGCGCGCCUCCGAAAUUGGAGGACUGACGCGUCGACGUCU
.((((..(((((((((((((((((..(((((.(((....))).))).))..)))))...(((..((.(....).))..))))))).((((((....))))))....)).)))))).)))) ( -43.90)
>DroSec_CAF1 59736 120 - 1
AGGGUCCUCGAUGGUGCGCCAAAUUAUGGUUAUUUAAAUAAACAGCACACGAUUUGAUUUGGUGGCCCGAAAGUGUUGCCAGCGCGCCUCCGAAAUUGGAGGACUGACGCGUCGACGUCU
..(((((((((.((((((((((((..(((((.(((....))).))).))..)))))...(((..((.(....).))..))))))))))))((....)))))))))((((......)))). ( -46.20)
>DroSim_CAF1 62638 120 - 1
AGGGCCCUCGAUGGUGCGCCAAAUUAUGGUUAUUUAAAUAAACAGCACACGAUUUGAUUUGGUGGCCCGAAAGUGUUGCCAGCGCGCCUCCGAAAUUGGAGGACUGACGCGUCGACGUCU
.((((..(((((((((((((((((..(((((.(((....))).))).))..)))))...(((..((.(....).))..))))))).((((((....))))))....)).)))))).)))) ( -43.90)
>DroEre_CAF1 60480 118 - 1
--GGCCCUCGAUGGUGCGCCAAAUUAUGGUUAUUUAAAUAAACAGCACACGAUUUGAUUUGGUGGCCCAAAAGUGUUGCCAGCGCGCCUCCGAAAUUGCAGGACUGACGCGUCGACGUCU
--.((..(((..((((((((((((..(((((.(((....))).))).))..)))))...(((..((.(....).))..))))))))))..)))....))......((((......)))). ( -36.70)
>DroYak_CAF1 64447 120 - 1
AGGGCCCUCGAUGGUGCGCCAAAUUAUGGUUAUUUAAAUAAACAGCACACGAUUUGAUUUGGUGGCCCAAAAGUGUUGCCAGCGCGCCUCCGAAAUUGGAGGACUGACGCGUCGACGUCU
.((((..(((((((((((((((((..(((((.(((....))).))).))..)))))...(((..((.(....).))..))))))).((((((....))))))....)).)))))).)))) ( -40.20)
>consensus
AGGGCCCUCGAUGGUGCGCCAAAUUAUGGUUAUUUAAAUAAACAGCACACGAUUUGAUUUGGUGGCCCGAAAGUGUUGCCAGCGCGCCUCCGAAAUUGGAGGACUGACGCGUCGACGUCU
.((((..(((((((((((((((((..(((((.(((....))).))).))..)))))...(((..((.(....).))..))))))).((((((....))))))....)).)))))).)))) (-39.66 = -39.90 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:25 2006