Locus 2505

Sequence ID	2R_DroMel_CAF1
Location	8,940,239 – 8,940,365
Length	126
Max. P	0.997339

overview

Window 5

Location	8,940,239 – 8,940,339
Length	100
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	92.80
Mean single sequence MFE	-35.04
Consensus MFE	-25.32
Energy contribution	-26.20
Covariance contribution	0.88
Combinations/Pair	1.16
Mean z-score	-2.08
Structure conservation index	0.72
SVM decision value	0.02
SVM RNA-class probability	0.544571
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8940239 100 - 20766785
AGGAACAUUGGUGAACCACUUUGAUUAGGUGGUCAAAUGGUGCUCCGUAGGAAUCCCUUCAUUGGCCGUGUGUAUAGGCAAAUGUGCAUGGCACAGAAUC
.(((.((((..(((.((((((.....)))))))))...)))).)))(.(((....))).).(((((((((..(((......)))..)))))).))).... ( -33.60)
>DroSec_CAF1 14498 100 - 1
AGGAACAUUGGCGAACCACUCUGAUUAGAUGGUCAGAUGGUGCUCCGUAGGAAUCCCCUCACUGGCCGUGUGUAUAGGCAAAUGUGCAUGGCACAGAAUC
.(((.(..(((.(.((((.(((((((....))))))))))).).)))..)...))).....(((((((((..(((......)))..)))))).))).... ( -34.40)
>DroSim_CAF1 8764 100 - 1
AGGAACAUUGGCGAACCACUCUGAUUAGGUGGUCAGAUGGUGCUCCGUAGGAAUCCCCUCACUGGCCGUGUGUAUAGGCAAAUGUGCAUGGCACAGAAUC
.(((.((((..(..((((((.......))))))..)..)))).)))(.(((.....)))).(((((((((..(((......)))..)))))).))).... ( -34.60)
>DroEre_CAF1 14031 100 - 1
AGGAACAUUGGGGAACCACUCUGAUUAGGUGGUCAGAUGGUGCUCCGCAGGAAUCCCUUCAGUGGCCGUGUGUAUAGGCAAAUGUGCAUGUCGCAGAAUC
.(((...(((.(((((((.(((((((....)))))))))))..))).)))...))).(((.(((((.(((..(((......)))..)))))))).))).. ( -33.50)
>DroYak_CAF1 8974 100 - 1
AGGAACAUUGCUGAGCCACUCUGAUUAGGUGGUCAGCUAGUGCUCCGUAGGAAUCCCUUCACUGGCCGUGUGUAUAGGCCAAUGUGGAUGCCACAGAAUC
.(((.(((((((((.(((((.......)))))))))).)))).)))((.((.((((...((.(((((.........))))).)).)))).))))...... ( -39.10)
>consensus
AGGAACAUUGGCGAACCACUCUGAUUAGGUGGUCAGAUGGUGCUCCGUAGGAAUCCCUUCACUGGCCGUGUGUAUAGGCAAAUGUGCAUGGCACAGAAUC
.(((.(((((.(..((((((.......))))))..).))))).)))(.(((....))).).(((((((((..(((......)))..)))))).))).... (-25.32 = -26.20 +   0.88)

alignment

secondary structure

dotplot

Window 6

Location	8,940,263 – 8,940,365
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	92.25
Mean single sequence MFE	-33.40
Consensus MFE	-28.40
Energy contribution	-28.28
Covariance contribution	-0.12
Combinations/Pair	1.14
Mean z-score	-2.42
Structure conservation index	0.85
SVM decision value	2.84
SVM RNA-class probability	0.997339
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8940263 102 + 20766785
UAUACACACGGCCAAUGAAGGGAUUCCUACGGAGCACCAUUUGACCACCUAAUCAAAGUGGUUCACCAAUGUUCCUUGCGUGGCCAACUGGUCGUAUAACUU
(((((((..(((((...(((((((......((.(.(((((((((........)).))))))).).))...)))))))...))))).....)).))))).... ( -28.00)
>DroSec_CAF1 14522 102 + 1
UAUACACACGGCCAGUGAGGGGAUUCCUACGGAGCACCAUCUGACCAUCUAAUCAGAGUGGUUCGCCAAUGUUCCUUGCCUGGCCACCUGGACGUAUAACUU
(((((.((.((((((..(((((((.....((((.(((..(((((........)))))))).)))).....)))))))..))))))...))...))))).... ( -35.10)
>DroSim_CAF1 8788 102 + 1
UAUACACACGGCCAGUGAGGGGAUUCCUACGGAGCACCAUCUGACCACCUAAUCAGAGUGGUUCGCCAAUGUUCCUUGCCUGGCCACCUGGACGUAUAACUU
(((((.((.((((((..(((((((.....((((.(((..(((((........)))))))).)))).....)))))))..))))))...))...))))).... ( -35.10)
>DroEre_CAF1 14055 102 + 1
UAUACACACGGCCACUGAAGGGAUUCCUGCGGAGCACCAUCUGACCACCUAAUCAGAGUGGUUCCCCAAUGUUCCUUGCCUGGCCACCUGGUCGCUUAACUU
.........(((((...(((((((...((.(((((....(((((........)))))...))))).))..)))))))...)))))................. ( -30.90)
>DroYak_CAF1 8998 102 + 1
UAUACACACGGCCAGUGAAGGGAUUCCUACGGAGCACUAGCUGACCACCUAAUCAGAGUGGCUCAGCAAUGUUCCUUGCCUGGCCACCUGGUCGUAUAACCU
(((((((..((((((..((((((((((...)))......(((((((((((....)).)))).)))))...)))))))..)))))).....)).))))).... ( -37.90)
>consensus
UAUACACACGGCCAGUGAAGGGAUUCCUACGGAGCACCAUCUGACCACCUAAUCAGAGUGGUUCACCAAUGUUCCUUGCCUGGCCACCUGGUCGUAUAACUU
.........((((((..(((((((.......((((....(((((........)))))...))))......)))))))..))))))................. (-28.40 = -28.28 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:46 2006