Locus 145

Sequence ID	X_DroMel_CAF1
Location	530,212 – 530,421
Length	209
Max. P	0.982438

overview

Window 0

Location	530,212 – 530,302
Length	90
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	79.57
Mean single sequence MFE	-22.64
Consensus MFE	-16.22
Energy contribution	-16.46
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-1.76
Structure conservation index	0.72
SVM decision value	0.66
SVM RNA-class probability	0.815656
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 530212 90 + 22224390
UGGACAACAUUGUGCCAGGCC------AACAAAAUCGUUAAUAACUGGCAUCUGGCACGUUCUUACCUGCAGCUAACAUGGCUUCCUUCACCA------------------------CCC
.(((.......((((((((((------(.................))))..)))))))............((((.....))))))).......------------------------... ( -21.23)
>DroSec_CAF1 16986 88 + 1
UGGACAACAUUGUGCCAGGCC------AACAAAAUAGUUAAUAACUGGCGUCUGGCAGGU--UUACCUGCACCUAACAUGGCAUCAUUUACCA------------------------CCC
(((........((((((.(((------(.................)))).....(((((.--...)))))........))))))......)))------------------------... ( -21.97)
>DroSim_CAF1 17265 88 + 1
UGGACAACAUUGUGCCAGGCC------AACAAAAUAGUUAAUAACUGGCGUCUGGCAGGU--UUACCUGCACCUAACAUGGCAUCAUUUACCA------------------------CCC
(((........((((((.(((------(.................)))).....(((((.--...)))))........))))))......)))------------------------... ( -21.97)
>DroEre_CAF1 21931 114 + 1
GGGACAACAUUGUGCCAGGCC------AACAAAAUCGUUAAUAACUGGCAUCUGGCACGUGCUUACCUGCAGCUAACAUGGCUUCCUCCACCACCACAACACCACAACACUCCAACACCC
(((........((((((((((------(.................))))..)))))))((((......))((((.....))))............))....................))) ( -24.13)
>DroYak_CAF1 16318 92 + 1
GGGACAACAUUGUGCCGGGCCAACGCCAACAAAAUCGUUAAUAACUGGCAUCUGGCACGUGCUUACCUGCAGCUAACAUGGCUUCCUCCACC----------------------------
((((.......(((((((((((.....(((......)))......))))..))))))).(((......)))(((.....))).)))).....---------------------------- ( -23.90)
>consensus
UGGACAACAUUGUGCCAGGCC______AACAAAAUCGUUAAUAACUGGCAUCUGGCACGU_CUUACCUGCAGCUAACAUGGCUUCCUUCACCA________________________CCC
.((.......(((((((((((......(((......))).......)))..))))))))......((((.......)).)).........))............................ (-16.22 = -16.46 +   0.24)

alignment

secondary structure

dotplot

Window 1

Location	530,286 – 530,381
Length	95
Sequences	4
Columns	95
Reading direction	reverse
Mean pairwise identity	86.14
Mean single sequence MFE	-33.05
Consensus MFE	-24.66
Energy contribution	-25.29
Covariance contribution	0.63
Combinations/Pair	1.21
Mean z-score	-3.01
Structure conservation index	0.75
SVM decision value	1.91
SVM RNA-class probability	0.982438
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 530286 95 - 22224390
ACAUGUUUCCUUGCCCCGCUUUUUUAUAGCCAUCUUCCUUCAAAAACAGAGGGUUAAAAGGGGUUGUAUGGAGGGGUUGGGGUGGUGAAGGAAGC
....(((((((((((((((((((((((((((.(((((((((.......)))))....)))))))))))..)))))).))))))....)))))))) ( -34.60)
>DroSec_CAF1 17058 95 - 1
AAAUGCUUCCUUGGCCCGCCUUUUUAUGGCCAUCUUCCUUCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGGAGGUGUUGGGGUGGUAAAUGAUGC
...((((.(((..((..(((((..((..(((.(((((((((.......)))))....)))))))..))..)))))))..))).))))........ ( -34.10)
>DroSim_CAF1 17337 95 - 1
AAAUGUUUCCUUGGCCCGCCUUUUUAUGGCCAUCUUCCUUCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGGAGGUGUUGGGGUGGUAAAUGAUGC
........(((..((..(((((..((..(((.(((((((((.......)))))....)))))))..))..)))))))..)))............. ( -29.70)
>DroYak_CAF1 16398 89 - 1
AAAUGUU-CUUUGCCCCGGCUUUUUAUGGCCAUCUUCCUGCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGUGGCUGUG-----GGUGGAGGAAGC
.....((-(((..((((((((...((..(((((((((((......)).)))))).......)))..))...))))).)-----))..)))))... ( -33.81)
>consensus
AAAUGUUUCCUUGCCCCGCCUUUUUAUGGCCAUCUUCCUUCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGGAGGUGUUGGGGUGGUAAAGGAAGC
....((((((((..(((((((((.(((((((.(((((((((.......)))))....))))))))))).))))))).......))..)))))))) (-24.66 = -25.29 +   0.63)

alignment

secondary structure

dotplot

Window 2

Location	530,302 – 530,421
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	92.46
Mean single sequence MFE	-36.26
Consensus MFE	-28.00
Energy contribution	-27.84
Covariance contribution	-0.16
Combinations/Pair	1.16
Mean z-score	-1.63
Structure conservation index	0.77
SVM decision value	0.18
SVM RNA-class probability	0.619708
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 530302 119 - 22224390
AACUUUCUCCCAAAUGUGCCACUAAUUUGUGGGCAUGUGAACAUGUUU-CCUUGCCCCGCUUUUUUAUAGCCAUCUUCCUUCAAAAACAGAGGGUUAAAAGGGGUUGUAUGGAGGGGUUG
.......((((.......((((......))))(((((....))))).(-((..((((((((.......)))......(((((.......)))))......))))).....)))))))... ( -35.60)
>DroSec_CAF1 17074 119 - 1
AACUUACUCCCAAAUGUGCCACUAAUUUGUGGGCAUGUGAAAAUGCUU-CCUUGGCCCGCCUUUUUAUGGCCAUCUUCCUUCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGGAGGUGUUG
..........((.((((.((((......)))))))).))..(((((((-((.(((((((((.......)))......(((((.......))))).......))))))...))))))))). ( -36.50)
>DroSim_CAF1 17353 119 - 1
AACUUACUCCCAAAUGUGCCACUAAUUUGUGGGCAUGUGAAAAUGUUU-CCUUGGCCCGCCUUUUUAUGGCCAUCUUCCUUCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGGAGGUGUUG
.........(((((((((((((......)).)))))))(((.....))-).))))..((((((..((..(((.(((((((((.......)))))....)))))))..))..))))))... ( -34.30)
>DroEre_CAF1 22045 120 - 1
AACUUUCUCCCAAAUGUGCCACUAAUUUGUGGGCAUGUGAAAAUGUUUCCUUUGGCCCGGCUUUUUAUGGCCAUUUUCCUUCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGGGGGUGUUG
(((...((((((.(((((((((......)).)))))))........((((((((((((((((......)))).(((((....)))))....))))).))))))).....)))))).))). ( -40.00)
>DroYak_CAF1 16410 117 - 1
AACUUUCUCCCAAAUGUGCCACUAAUUUGUGGGCAUGUGAAAAUGUU--CUUUGCCCCGGCUUUUUAUGGCCAUCUUCCUGCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGUGGCUGUG-
.................(((((........((((((......)))))--)...(((((((((......))))((((((((......)).)))))).....))))).....)))))....- ( -34.90)
>consensus
AACUUUCUCCCAAAUGUGCCACUAAUUUGUGGGCAUGUGAAAAUGUUU_CCUUGGCCCGCCUUUUUAUGGCCAUCUUCCUUCGAAAAGAGAGGGUUAAAAGGGGUUGUAUGGAGGUGUUG
..........((.((((.((((......)))))))).))..................((((((..(((((((.(((((((((.......)))))....)))))))))))..))))))... (-28.00 = -27.84 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:34 2006