Locus 6070

Sequence ID	3R_DroMel_CAF1
Location	15,947,226 – 15,947,386
Length	160
Max. P	0.868331

overview

Window 1

Location	15,947,226 – 15,947,346
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.92
Mean single sequence MFE	-30.60
Consensus MFE	-22.94
Energy contribution	-23.74
Covariance contribution	0.80
Combinations/Pair	1.13
Mean z-score	-1.67
Structure conservation index	0.75
SVM decision value	0.11
SVM RNA-class probability	0.589889
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15947226 120 + 27905053
UAUCCUUCGCCCAUGAGCAAACAUAUCUGUGGUUUACGAUACGGAAAGGAUUUUCUUGGCGUUUCUUAAUCGAUUGGUGGUGCGACUUUUACCUAGUCAGUGCCACCAAUAUAUUCAUCC
.......((((...(((.((((...((((((........))))))...).))).)))))))...........((((((((..(((((.......)))).)..)))))))).......... ( -32.10)
>DroSec_CAF1 73599 120 + 1
UAUCCUUCGCCCAUGAGCAAACAUAUCUGUGGUUUACGAUACGAAAAGGACUUUCUUGGCGUUUCAUAAUCGAUUGGUGGUGCGACUUUUACCUAGUCAGUGCCACCAAUAUAUUCAUCC
............(((((............(((((...((.(((..((((....))))..))).))..)))))((((((((..(((((.......)))).)..))))))))...))))).. ( -30.90)
>DroSim_CAF1 48921 120 + 1
UAUCCUUCGCCCAUGAGCAAACAUAUCUGUGGUUUACGAUACGGAAGGGAUUUUCUUGCCGUUUCAUAAUCGAUUGGUAUUGCGACUUUUACCUAGUCAGUGCCACCAAUAUAUUCAUCC
........((......))....((((..(((((..((((.((((.((((....)))).)))).))......((((((((..........)))).)))).)))))))..))))........ ( -23.90)
>DroEre_CAF1 48517 120 + 1
UUUCCUUCGCCCACGAGCAAACAUAUCAGUGGUUUACCAUACGAAAAGUAUUUUCUUGGAGGUUCUUAAUCGAUUGGUGGUGCGACUUUUACAUAGUCAGUGCCACCAAUUUAUUCAGCC
...(((((..((((((.........)).))))......((((.....))))......)))))..((.(((.(((((((((..(((((.......)))).)..))))))))).))).)).. ( -33.90)
>DroYak_CAF1 77313 120 + 1
UUUCCUUCGCCCAUGAGCAAACAUAUCUGUGGUUUACGGUACGAAAAGUAUAUUCUUGGCGGUUUUUUAUCAAUUGGUGGUGCGACUUUUACGUAGUCAGUGCCACCAAUAUGUUUAUCC
......((((((.(((((..(((....))).))))).)((((.....))))......)))))..........((((((((..(((((.......)))).)..)))))))).......... ( -32.20)
>consensus
UAUCCUUCGCCCAUGAGCAAACAUAUCUGUGGUUUACGAUACGAAAAGGAUUUUCUUGGCGUUUCUUAAUCGAUUGGUGGUGCGACUUUUACCUAGUCAGUGCCACCAAUAUAUUCAUCC
........((......))...........(((((...((.(((..(((......)))..))).))..)))))(((((((((((((((.......)))).))))))))))).......... (-22.94 = -23.74 +   0.80)

alignment

secondary structure

dotplot

Window 2

Location	15,947,266 – 15,947,386
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.42
Mean single sequence MFE	-30.12
Consensus MFE	-25.32
Energy contribution	-25.84
Covariance contribution	0.52
Combinations/Pair	1.10
Mean z-score	-1.62
Structure conservation index	0.84
SVM decision value	0.86
SVM RNA-class probability	0.868331
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15947266 120 + 27905053
ACGGAAAGGAUUUUCUUGGCGUUUCUUAAUCGAUUGGUGGUGCGACUUUUACCUAGUCAGUGCCACCAAUAUAUUCAUCCACAUCAAUUCCAUCGGCUAUCUGAGUCUGGGUGUUCUUUA
....(((((((..(((.(((((..........((((((((..(((((.......)))).)..))))))))..........))..........((((....))))))).))).))))))). ( -31.95)
>DroSec_CAF1 73639 120 + 1
ACGAAAAGGACUUUCUUGGCGUUUCAUAAUCGAUUGGUGGUGCGACUUUUACCUAGUCAGUGCCACCAAUAUAUUCAUCCACAUCAAUUCCAUCGGCUAUCUCAGUCUGGGUGUUCUUUA
....(((((((....(((..((..........((((((((..(((((.......)))).)..))))))))..........))..))).((((..((((.....)))))))).))))))). ( -33.25)
>DroSim_CAF1 48961 120 + 1
ACGGAAGGGAUUUUCUUGCCGUUUCAUAAUCGAUUGGUAUUGCGACUUUUACCUAGUCAGUGCCACCAAUAUAUUCAUCCACAUCAAUUCCAUCGGCUAUCUCAGUCUGGGUGUUCUUUA
.((((.(((((......((((..((......)).(((((((..((((.......)))))))))))............................)))).)))))..))))........... ( -21.80)
>DroEre_CAF1 48557 120 + 1
ACGAAAAGUAUUUUCUUGGAGGUUCUUAAUCGAUUGGUGGUGCGACUUUUACAUAGUCAGUGCCACCAAUUUAUUCAGCCACAUCUAUUUUAUCGGCCAUCUCAGCCUGGGUGUUCUUUA
..((((.....))))..(((((((...(((.(((((((((..(((((.......)))).)..))))))))).))).))))(((((((.......(((.......)))))))))))))... ( -33.41)
>DroYak_CAF1 77353 120 + 1
ACGAAAAGUAUAUUCUUGGCGGUUUUUUAUCAAUUGGUGGUGCGACUUUUACGUAGUCAGUGCCACCAAUAUGUUUAUCCACAUCAAUUUUAUCGGCUAUCUCAGUCUGGGUGUUCUUUA
....((((.((((((.(((.(((.....))).((((((((..(((((.......)))).)..))))))))........))).............((((.....)))).)))))).)))). ( -30.20)
>consensus
ACGAAAAGGAUUUUCUUGGCGUUUCUUAAUCGAUUGGUGGUGCGACUUUUACCUAGUCAGUGCCACCAAUAUAUUCAUCCACAUCAAUUCCAUCGGCUAUCUCAGUCUGGGUGUUCUUUA
....(((((((.(((.................(((((((((((((((.......)))).)))))))))))........................((((.....)))).))).))))))). (-25.32 = -25.84 +   0.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:55 2006