Locus 7287

Sequence ID	2L_DroMel_CAF1
Location	20,414,223 – 20,414,320
Length	97
Max. P	0.919688

overview

Window 8

Location	20,414,223 – 20,414,320
Length	97
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	87.86
Mean single sequence MFE	-32.17
Consensus MFE	-29.94
Energy contribution	-29.92
Covariance contribution	-0.03
Combinations/Pair	1.08
Mean z-score	-1.64
Structure conservation index	0.93
SVM decision value	1.13
SVM RNA-class probability	0.919688
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20414223 97 + 22407834
UA---GCUGUGAAAAAAGCGUGCCCCAUGCAGCAGAACUGUGCCCAUGUGGCUCCGAAUGGGAGGAGUCGCCCAUUUGGUAACGGUAACGUCGUGCAGCU
.(---((((((......(((((((.((((..(((....)))...)))).))).(((((((((........)))))))))........))))..))))))) ( -34.10)
>DroSec_CAF1 8836 97 + 1
UA---GCUGUGAAAAAAGCAUGCCCCAUGCAGCAGAACUGUGCCCAUGUGGCUCCGAAUGGGAGGAGUCGCCCAUUUGGUAACGGUAACGUCGUGCAGCU
.(---(((((.......(((((...)))))......(((((..(((.((((((((........)))))))).....)))..)))))........)))))) ( -33.80)
>DroSim_CAF1 9970 97 + 1
UA---GCUGUGAAAAAAGCAUGCCCCAUGCAGCAGAACUGUGCCCAUGUGGCUCCGAAUGGGAGGAGUCGCCCAUUUGGUAACGGUAACGUCGUGCAGCU
.(---(((((.......(((((...)))))......(((((..(((.((((((((........)))))))).....)))..)))))........)))))) ( -33.80)
>DroEre_CAF1 8861 94 + 1
UAGUCGCUGUGAAAAAAGCAUGCCCCAUGCAGCAAAACUGUGCCCAUGUGGCUCCGAAUGGGAGGAGUCGCCCAUUUGGU------AACGUCGUGCAGCU
.....(((((...........(((.((((..(((......))).)))).))).(((((((((........))))))))).------........))))). ( -31.40)
>DroYak_CAF1 8512 91 + 1
UA---GCUGUGAAAAAAGCAUGCCCCAUGCAGCAAAACUGUGCCCAUGUGGCUCCAAAUGGGAGGAGUCGCCCAUUUGGU------AACGUCGUGCAGCU
.(---(((((...........(((.((((..(((......))).)))).))).(((((((((........))))))))).------........)))))) ( -32.00)
>DroAna_CAF1 7372 79 + 1
GA---GCUGUGAAAAA----UGCCCCAUGCA--AAAACUGUGCCCAUGUGGCUCCAAAUGGG---AGUCACCCGUUUGGUAAC---------GUGCAGCU
.(---(((((......----.(((.((((((--.......)))..))).))).(((((((((---.....)))))))))....---------..)))))) ( -27.90)
>consensus
UA___GCUGUGAAAAAAGCAUGCCCCAUGCAGCAAAACUGUGCCCAUGUGGCUCCGAAUGGGAGGAGUCGCCCAUUUGGUAAC___AACGUCGUGCAGCU
.....(((((...........(((.((((..(((....)))...)))).))).(((((((((........)))))))))...............))))). (-29.94 = -29.92 +  -0.03)

alignment

secondary structure

dotplot

Window 9

Location	20,414,223 – 20,414,320
Length	97
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	87.86
Mean single sequence MFE	-30.50
Consensus MFE	-25.48
Energy contribution	-26.15
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-1.59
Structure conservation index	0.84
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20414223 97 - 22407834
AGCUGCACGACGUUACCGUUACCAAAUGGGCGACUCCUCCCAUUCGGAGCCACAUGGGCACAGUUCUGCUGCAUGGGGCACGCUUUUUUCACAGC---UA
(((((...((((....)))).((.((((((.(....).)))))).)).(((.((((((((......)))).)))).)))............))))---). ( -31.60)
>DroSec_CAF1 8836 97 - 1
AGCUGCACGACGUUACCGUUACCAAAUGGGCGACUCCUCCCAUUCGGAGCCACAUGGGCACAGUUCUGCUGCAUGGGGCAUGCUUUUUUCACAGC---UA
(((((...((((....)))).((.((((((.(....).)))))).)).(((.((((((((......)))).)))).)))............))))---). ( -31.60)
>DroSim_CAF1 9970 97 - 1
AGCUGCACGACGUUACCGUUACCAAAUGGGCGACUCCUCCCAUUCGGAGCCACAUGGGCACAGUUCUGCUGCAUGGGGCAUGCUUUUUUCACAGC---UA
(((((...((((....)))).((.((((((.(....).)))))).)).(((.((((((((......)))).)))).)))............))))---). ( -31.60)
>DroEre_CAF1 8861 94 - 1
AGCUGCACGACGUU------ACCAAAUGGGCGACUCCUCCCAUUCGGAGCCACAUGGGCACAGUUUUGCUGCAUGGGGCAUGCUUUUUUCACAGCGACUA
.((((.........------.((.((((((.(....).)))))).)).(((.((((((((......)))).)))).)))............))))..... ( -29.80)
>DroYak_CAF1 8512 91 - 1
AGCUGCACGACGUU------ACCAAAUGGGCGACUCCUCCCAUUUGGAGCCACAUGGGCACAGUUUUGCUGCAUGGGGCAUGCUUUUUUCACAGC---UA
(((((.........------.(((((((((.(....).))))))))).(((.((((((((......)))).)))).)))............))))---). ( -34.30)
>DroAna_CAF1 7372 79 - 1
AGCUGCAC---------GUUACCAAACGGGUGACU---CCCAUUUGGAGCCACAUGGGCACAGUUUU--UGCAUGGGGCA----UUUUUCACAGC---UC
(((((...---------....(((((.(((.....---))).))))).(((.((((.(.........--).)))).))).----.......))))---). ( -24.10)
>consensus
AGCUGCACGACGUU___GUUACCAAAUGGGCGACUCCUCCCAUUCGGAGCCACAUGGGCACAGUUCUGCUGCAUGGGGCAUGCUUUUUUCACAGC___UA
.((((................((.((((((.(....).)))))).)).(((.((((((((......)))).)))).)))............))))..... (-25.48 = -26.15 +   0.67)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:20 2006