Locus 2117

Sequence ID	2L_DroMel_CAF1
Location	5,702,098 – 5,702,258
Length	160
Max. P	0.851777

overview

Window 7

Location	5,702,098 – 5,702,218
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.17
Mean single sequence MFE	-30.59
Consensus MFE	-28.66
Energy contribution	-29.30
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.35
Structure conservation index	0.94
SVM decision value	0.79
SVM RNA-class probability	0.851777
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5702098 120 + 22407834
UUUUGGCAAGUUUAACAUGGUUUGGGGCACAUAAACCAAAACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAUGGCAAUUAAAGCCAAAUGCCAUCAACGAUGACGGGUCGUCCU
.((((((..((((....((((((((....).))))))))))).(((((.......)))))..((((((.......)))))).......))))))..........(((((....))))).. ( -30.70)
>DroSec_CAF1 147432 120 + 1
UUUUGGCAAGUUUAACAUAGUUUGAGGCACAUAAACCAAAACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAUGGCAAUUAAAGCCAAAUGCCAUCGACGAUGACGGGUCGUCCU
...(((((.......((.....)).(((...............(((((.......)))))..((((((.......)))))).......)))...)))))..((((((.....)))))).. ( -30.40)
>DroSim_CAF1 147000 120 + 1
UUUUGGCAAGUUUAACAUGGUUUGGGGCACAUAAACCAAAACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAUGGCAAUUAAAGCCAAAUGCCAUCGACGAUGACGGGUCGUCCU
.((((((..((((....((((((((....).))))))))))).(((((.......)))))..((((((.......)))))).......)))))).......((((((.....)))))).. ( -32.70)
>DroEre_CAF1 150240 120 + 1
UUUUGGCAAGUUUAACAUGGUUUGGGGCACAUAAACCAAAACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAAGGCAAUUAAAGCCAAAUGCCAUCGACGAUGACGGGUCGUCCU
.((((((..((((....((((((((....).))))))))))).(((((.......)))))..(((.((.......)).))).......)))))).......((((((.....)))))).. ( -28.40)
>DroYak_CAF1 149203 120 + 1
UUUUGGCAAGUUUAACAUGGUUUGGGGCACAUAAACCAAAACGUCAUAACAAGCAUGUGAGAGCCAUCUAUGCACGAAGGCAAUUAAAGCCAAAAGCCAUCGACGAUGACGGUUUGUCCU
....((((((.......((((((((....).)))))))...((((((.....(((((.((......))))))).(((.(((..............))).)))...)))))).)))))).. ( -30.74)
>consensus
UUUUGGCAAGUUUAACAUGGUUUGGGGCACAUAAACCAAAACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAUGGCAAUUAAAGCCAAAUGCCAUCGACGAUGACGGGUCGUCCU
.((((((...(((.((((.(((((.(((..............)))....))))))))).)))((((((.......)))))).......)))))).......((((((.....)))))).. (-28.66 = -29.30 +   0.64)

alignment

secondary structure

dotplot

Window 8

Location	5,702,138 – 5,702,258
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.75
Mean single sequence MFE	-34.11
Consensus MFE	-28.04
Energy contribution	-29.28
Covariance contribution	1.24
Combinations/Pair	1.11
Mean z-score	-1.28
Structure conservation index	0.82
SVM decision value	-0.07
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5702138 120 + 22407834
ACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAUGGCAAUUAAAGCCAAAUGCCAUCAACGAUGACGGGUCGUCCUUAUGGGUCCGAGAUCCAUCCAUCUCACAGUGGAAUUUGGA
.((((((........(((((((....))).)))).(((((((.((......)).)))))))....)))))).....(((...((((((...))))))(((((......)))))....))) ( -33.60)
>DroSec_CAF1 147472 120 + 1
ACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAUGGCAAUUAAAGCCAAAUGCCAUCGACGAUGACGGGUCGUCCUUAUGGGCCCGAGAUCCAUCCAUCGCACAGUGAACUGUGGC
..(((((........(((((((....))).))))((((((((.((......)).))))))))...)))))(((((((((....))))....)))))........(((((....))))).. ( -39.90)
>DroSim_CAF1 147040 120 + 1
ACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAUGGCAAUUAAAGCCAAAUGCCAUCGACGAUGACGGGUCGUCCUUAUGGGCCCGAGAUCCAUUCAUCGCACAGUGAACUUUGGU
...(((((.......)))))..((((......((((((((((.((......)).)))))))(.((((((.(((((((((....))))....)))))..)))))))...))).....)))) ( -36.20)
>DroEre_CAF1 150280 120 + 1
ACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAAGGCAAUUAAAGCCAAAUGCCAUCGACGAUGACGGGUCGUCCUUAUGGGCCUGAUAUCCAUUCACCGCACAGUGGUCCUUAGC
.((((((........(((((((....))).))))(((.((((.((......)).)))).)))...))))))....((((....))))((((...(((((........)))))...)))). ( -29.10)
>DroYak_CAF1 149243 120 + 1
ACGUCAUAACAAGCAUGUGAGAGCCAUCUAUGCACGAAGGCAAUUAAAGCCAAAAGCCAUCGACGAUGACGGUUUGUCCUUAUGGGCCUGAUAUCCAUCCACCGCACAGUGGUCUUCAGC
.((((((.....(((((.((......))))))).(((.(((..............))).)))...))))))....((((....))))((((.......((((......))))...)))). ( -31.74)
>consensus
ACGUCAUAACAAGCAUGUGAGAGCCAUCUAUACACGAUGGCAAUUAAAGCCAAAUGCCAUCGACGAUGACGGGUCGUCCUUAUGGGCCCGAGAUCCAUCCAUCGCACAGUGGACUUUGGC
.((((((........(((((((....))).))))((((((((.((......)).))))))))...))))))....((((....))))(((((.(((((..........))))).))))). (-28.04 = -29.28 +   1.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:00 2006