Locus 133

Sequence ID	3L_DroMel_CAF1
Location	419,853 – 419,945
Length	92
Max. P	0.810398

overview

Window 9

Location	419,853 – 419,945
Length	92
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	86.11
Mean single sequence MFE	-40.43
Consensus MFE	-32.41
Energy contribution	-33.63
Covariance contribution	1.22
Combinations/Pair	1.03
Mean z-score	-1.77
Structure conservation index	0.80
SVM decision value	0.00
SVM RNA-class probability	0.535454
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 419853 92 + 23771897
AGGCUGGCGUGGAGGUGGAGGCUUCUCCUGUGGCUAGUGCCUCCACCUGAUUACCAUUGCUGUCGGUGACCGUGAUGGCCACUGCUCCGGUA---------
..(((((.(..(((((((((((....((...)).....)))))))))).....((((..(.(((...))).)..))))...)..).))))).--------- ( -41.30)
>DroSec_CAF1 1205 92 + 1
AGGCUGGCGUGGAGGUGGAGGCUUCUCCUGUGGCUAGUGCCUCCACCUGAUUACCAUUGCUAUCGGUGACCGUGAUGGCCACUGCUCCGGAG---------
.((..(((((((((((((((((....((...)).....)))))))))).....((((..(....(....).)..)))))))).)))))....--------- ( -38.30)
>DroSim_CAF1 1205 92 + 1
AGGCUGGCGUGGAGGUGGAGGCUUCUCCUGUGGCUAGUGCCUCCACCUGAUUACCAUUGCUAUCGGUGACCGUGAUGGCCACUGCUCCGGAG---------
.((..(((((((((((((((((....((...)).....)))))))))).....((((..(....(....).)..)))))))).)))))....--------- ( -38.30)
>DroEre_CAF1 1207 92 + 1
AGGCUGUCGUGGAGGUGGCGGCUUCUCCUGUGGCCAGAGCCUCCACCUGAUUGCCAUUGCUGUCGGUGACCGUGAUGGCCACUGCUCCGCUG---------
.((((((((((((((((((.((.......)).)))...))))))))(((((.((....)).))))).......)))))))............--------- ( -38.60)
>DroYak_CAF1 1214 92 + 1
AGGCUGGCGUGGAGGUGGAGGCUUCUCCAGUGGCCAGAGCCUCCACCUGAUUGCCAUUGCUGUCGGUGACCGUGAUGGCCACAGCUCCGUUG---------
.((..((((((.((((((((((((..((...))...))))))))))))....(((((..(.(((...))).)..)))))))).)))))....--------- ( -43.20)
>DroPer_CAF1 49234 101 + 1
AGGCACCAGUGGAAGUGGAAGCCUCUCCGGUGGCCAACGAUUCCACCUGGUUGCCAUUGCUGUCGGUGACGGUGAUGGCCACCGAUCCGUUGAGCUCUUUC
.(((((((((((((.(((..(((.....)))..)))....))))).)))).))))...(((..(((...(((((.....)))))..)))...)))...... ( -42.90)
>consensus
AGGCUGGCGUGGAGGUGGAGGCUUCUCCUGUGGCCAGUGCCUCCACCUGAUUACCAUUGCUGUCGGUGACCGUGAUGGCCACUGCUCCGGUG_________
.((..(((((((((((((((((....((...)).....)))))))))).....((((..(.(((...))).)..)))))))).)))))............. (-32.41 = -33.63 +   1.22)

alignment

secondary structure

dotplot

Window 0

Location	419,853 – 419,945
Length	92
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	86.11
Mean single sequence MFE	-36.88
Consensus MFE	-30.17
Energy contribution	-29.62
Covariance contribution	-0.55
Combinations/Pair	1.15
Mean z-score	-2.28
Structure conservation index	0.82
SVM decision value	0.65
SVM RNA-class probability	0.810398
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 419853 92 - 23771897
---------UACCGGAGCAGUGGCCAUCACGGUCACCGACAGCAAUGGUAAUCAGGUGGAGGCACUAGCCACAGGAGAAGCCUCCACCUCCACGCCAGCCU
---------....((.((.((((((.....)))))).........((((....((((((((((.....((...))....))))))))))....)))))))) ( -35.40)
>DroSec_CAF1 1205 92 - 1
---------CUCCGGAGCAGUGGCCAUCACGGUCACCGAUAGCAAUGGUAAUCAGGUGGAGGCACUAGCCACAGGAGAAGCCUCCACCUCCACGCCAGCCU
---------....((.((.((((((.....)))))).........((((....((((((((((.....((...))....))))))))))....)))))))) ( -35.40)
>DroSim_CAF1 1205 92 - 1
---------CUCCGGAGCAGUGGCCAUCACGGUCACCGAUAGCAAUGGUAAUCAGGUGGAGGCACUAGCCACAGGAGAAGCCUCCACCUCCACGCCAGCCU
---------....((.((.((((((.....)))))).........((((....((((((((((.....((...))....))))))))))....)))))))) ( -35.40)
>DroEre_CAF1 1207 92 - 1
---------CAGCGGAGCAGUGGCCAUCACGGUCACCGACAGCAAUGGCAAUCAGGUGGAGGCUCUGGCCACAGGAGAAGCCGCCACCUCCACGACAGCCU
---------..((....(.((((((.....)))))).)...))...(((..((((((((.(((((((....)))....)))).))))))....))..))). ( -35.10)
>DroYak_CAF1 1214 92 - 1
---------CAACGGAGCUGUGGCCAUCACGGUCACCGACAGCAAUGGCAAUCAGGUGGAGGCUCUGGCCACUGGAGAAGCCUCCACCUCCACGCCAGCCU
---------....((.(((((((((.....))))....)))))..((((....(((((((((((....((...))...)))))))))))....)))).)). ( -40.30)
>DroPer_CAF1 49234 101 - 1
GAAAGAGCUCAACGGAUCGGUGGCCAUCACCGUCACCGACAGCAAUGGCAACCAGGUGGAAUCGUUGGCCACCGGAGAGGCUUCCACUUCCACUGGUGCCU
......(((...(((..(((((.....)))))...)))..)))...((((.((((.(((((..(..((((........))))..)..))))))))))))). ( -39.70)
>consensus
_________CACCGGAGCAGUGGCCAUCACGGUCACCGACAGCAAUGGCAAUCAGGUGGAGGCACUAGCCACAGGAGAAGCCUCCACCUCCACGCCAGCCU
.............((....((((((((..(.(((...))).)..)))))....((((((((((.....((...))....)))))))))).))).....)). (-30.17 = -29.62 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:29 2006