Locus 2669

Sequence ID	X_DroMel_CAF1
Location	7,153,054 – 7,153,275
Length	221
Max. P	0.864047

overview

Window 0

Location	7,153,054 – 7,153,167
Length	113
Sequences	5
Columns	115
Reading direction	reverse
Mean pairwise identity	95.78
Mean single sequence MFE	-45.84
Consensus MFE	-41.56
Energy contribution	-42.36
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-1.39
Structure conservation index	0.91
SVM decision value	0.84
SVM RNA-class probability	0.864047
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7153054 113 - 22224390
CGGCGUUCUAGUUCGAAGAUACGUUCUAGACUGCCUCGCCUCGGCCGGCGUCGCUGCCGGCGCCGCCGUCGACUGCGGUUCACUCUGAAAUGCUCA--CGCACACAGGCGUAAAG
.((((.(((((..((......))..))))).)))).(((((.(((.(((((((....))))))))))((((...(((.(((.....))).)))...--)).))..)))))..... ( -46.00)
>DroSec_CAF1 20829 113 - 1
CGGCGUUCUAGUUCGAAGAUACGUUCUAGACUGCCGCUCCUCGGCCGGCGUCGCUGCCGGCGCCGCCGUCGACUGCGGUUCACUCAGAAAUGCUCA--CGCACACAGGCGUAAAG
(((((.(((((..((......))..))))).))))).((..((((.(((((((....)))))))))))..))..(((.(((.....))).)))..(--(((......)))).... ( -44.60)
>DroSim_CAF1 15241 113 - 1
CGGCGUUCUAGUUCGAAGAUACGUUCUAGACUGCCGCUCCUCGGCCGGCGUCGCUGCCGGCGCCGCCGUCGACUGCGGUUCACUCAGAAAUGCUCA--CGCACACAGGCGUAAAG
(((((.(((((..((......))..))))).))))).((..((((.(((((((....)))))))))))..))..(((.(((.....))).)))..(--(((......)))).... ( -44.60)
>DroEre_CAF1 21567 113 - 1
CGGCGUUCUAGUUCGAAGAUACGUUCUAGACUGCCGCGCCUCUGCCGGCGUCGCUGCCGGCGCCGCUGUCGACUGCGGUUCACUCAGAAAUGCUCA--CGCAUACAGCCGUAAAG
(((((.(((((..((......))..))))).))))).......(((((((....)))))))((.(((((...(((.(.....).)))..((((...--.))))))))).)).... ( -42.40)
>DroYak_CAF1 21190 115 - 1
CGGCGUUCUAGUUCGAAGAUACGUUCUAGACUGCCGCGCCUCGGCCGGCGUCGCUGCCGGCGCCGCUGUCGACAGCGGUUCACUCAGCAAUGCUCACACGCACACAGGCGUAAAG
.((((.(((((..((......))..))))).))))((((((.((((((((....)))))))(((((((....)))))))...........(((......)))..))))))).... ( -51.60)
>consensus
CGGCGUUCUAGUUCGAAGAUACGUUCUAGACUGCCGCGCCUCGGCCGGCGUCGCUGCCGGCGCCGCCGUCGACUGCGGUUCACUCAGAAAUGCUCA__CGCACACAGGCGUAAAG
.((((.(((((..((......))..))))).))))((((((..(((((((....)))))))(((((.(....).)))))...........(((......)))...)))))).... (-41.56 = -42.36 +   0.80)

alignment

secondary structure

dotplot

Window 1

Location	7,153,167 – 7,153,275
Length	108
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	96.89
Mean single sequence MFE	-26.72
Consensus MFE	-21.00
Energy contribution	-20.84
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.90
Structure conservation index	0.79
SVM decision value	0.07
SVM RNA-class probability	0.567865
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7153167 108 + 22224390
AGGGCAGAACAAUUGUGUUUUGGAUUCCUUGCCGUGCGGAUCGCAAACGCGAGUUAUGAGAAGAGCGUAGUAAAACGUACGAGAAGUAGCUAACAAGAAA-AG--GAAAAG
....(((((((....)))))))..((((((((..((((...))))...)).((((((.....(.((((......)))).).....))))))........)-))--)))... ( -25.50)
>DroSec_CAF1 20942 108 + 1
AGGGCAGAACAAUUGUGUUUUGGAUUCCUUGCCGUGCGGAUCGCAAACGCGAGUUAUGAGAAGAGCGUAGUAAAACGUACGAGAAGUAGUUAACAAGAAA-AG--GAAAAG
....(((((((....)))))))..((((((..((((((..((((....)))).(((((.......))))).....))))))....((.....)).....)-))--)))... ( -24.70)
>DroSim_CAF1 15354 108 + 1
AGGGCAGAACAAUUGUGUUUUGGAUUCCUUGCCGUGCGGAUCGCAAACGCGAGUUAUGAGAAGAGCGUAGCAAAACGUACGAGAAGUAGCUAACAAGAAA-AG--GAAAAG
....(((((((....)))))))..((((((..((((((..((((....))))((((((.......))))))....))))))....((.....)).....)-))--)))... ( -28.80)
>DroEre_CAF1 21680 111 + 1
AGGGCAGAACAAUUGUGUUUUGGAUUCCUUGCCGUGCGGAUCGCAAACGCGAGUUAUGAGAAGAGCGUAGUGAAACGUACGAGAAGUAGCUAACAAGAAAAAAGGAAAAAG
....(((((((....)))))))..((((((..((((((..((((..((((...((....))...)))).))))..))))))....((.....)).......)))))).... ( -29.10)
>DroYak_CAF1 21305 109 + 1
AGGGCAGAACAAUUGUGUUUUGGAUUCCUUGCCGUGCGGAUCGCAAACGCGAGUUAUGAGAAGAGCGUAGUAAAACGUACGAGAAGUAGCUAACAAGAAAAAG--GAAAAG
....(((((((....)))))))..((((((((..((((...))))...)).((((((.....(.((((......)))).).....)))))).........)))--)))... ( -25.50)
>consensus
AGGGCAGAACAAUUGUGUUUUGGAUUCCUUGCCGUGCGGAUCGCAAACGCGAGUUAUGAGAAGAGCGUAGUAAAACGUACGAGAAGUAGCUAACAAGAAA_AG__GAAAAG
(((((((((((....)))))))...))))...((((((..((((....))))((((((.......))))))....)))))).............................. (-21.00 = -20.84 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:32 2006