Locus 4454

Sequence ID	2L_DroMel_CAF1
Location	12,797,856 – 12,798,013
Length	157
Max. P	0.980291

overview

Window 3

Location	12,797,856 – 12,797,973
Length	117
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	96.58
Mean single sequence MFE	-33.54
Consensus MFE	-30.18
Energy contribution	-30.34
Covariance contribution	0.16
Combinations/Pair	1.03
Mean z-score	-1.79
Structure conservation index	0.90
SVM decision value	1.86
SVM RNA-class probability	0.980291
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12797856 117 - 22407834
AAUUGGCACUUUGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUUUGUCAAGAGCUCAAAAUUUCAACUGGGAAUGAGCACAGUC
.....((......))((((.(((((((.((.(....)..)))))))))..))))..(((.(((..((((....))))..)))...(((((...(..(....)..).)))))...))) ( -34.00)
>DroSec_CAF1 63675 117 - 1
AAUUGGCACUUUGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUUUGUCAAGAGCUCAAAAUUUCAAAUGGAAAAGAGCACAGUC
.((((((..((((((((((.(((((((.((.(....)..)))))))))..))))......(((..((((....))))..)))...)).)))).((((.....))))...)).)))). ( -32.80)
>DroSim_CAF1 65802 117 - 1
AAUUGGCACUUUGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUUUGUCAAGAGCUCAAAAUUUCAAAUGGAAAAGAGCACAGUC
.((((((..((((((((((.(((((((.((.(....)..)))))))))..))))......(((..((((....))))..)))...)).)))).((((.....))))...)).)))). ( -32.80)
>DroEre_CAF1 65632 117 - 1
AAUUGGCACUUAGGCGCCGAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGGAAGCAUUUGUCAAGAGCUCAAAAUUUCUAAUGGGAAAGUGCACAGUC
.((((((((((.((((((((((((((((...(....).))))))).)))..)))......(((..((((....))))..)))...))).....(..(....)..))))))).)))). ( -35.70)
>DroYak_CAF1 66269 117 - 1
AAUUGGCACUUAGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUUUGUCAAGAGCUCAAAAUUUCAAAUAGGAAAGAGCACAGUC
.....((......))((((.(((((((.((.(....)..)))))))))..))))..(((.(((..((((....))))..)))...((((....((((......))))))))...))) ( -32.40)
>consensus
AAUUGGCACUUUGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUUUGUCAAGAGCUCAAAAUUUCAAAUGGGAAAGAGCACAGUC
.....((......))((((.(((((((.((.(....)..)))))))))..))))..(((.(((..((((....))))..)))...((((....((((.....)))).))))...))) (-30.18 = -30.34 +   0.16)

alignment

secondary structure

dotplot

Window 4

Location	12,797,896 – 12,798,013
Length	117
Sequences	5
Columns	117
Reading direction	reverse
Mean pairwise identity	98.29
Mean single sequence MFE	-32.80
Consensus MFE	-30.32
Energy contribution	-30.28
Covariance contribution	-0.04
Combinations/Pair	1.03
Mean z-score	-1.40
Structure conservation index	0.92
SVM decision value	0.55
SVM RNA-class probability	0.779478
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12797896 117 - 22407834
AACAAAAUGCUCGCUAAUCGAGCAAUUAAACACGUUCCGUAAUUGGCACUUUGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUU
..((((.((((((.....)))))).........((.(((....))).))))))((((((.(((((((.((.(....)..)))))))))..))))....(((.....)))...))... ( -33.20)
>DroSec_CAF1 63715 117 - 1
AACAAAAUGCUCGCUAAUCGAGCAAUUAAACACGUUCCGUAAUUGGCACUUUGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUU
..((((.((((((.....)))))).........((.(((....))).))))))((((((.(((((((.((.(....)..)))))))))..))))....(((.....)))...))... ( -33.20)
>DroSim_CAF1 65842 117 - 1
AACAAAAUGCUCGCUAAUCGAGCAAUUAAACACGUUCCGUAAUUGGCACUUUGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUU
..((((.((((((.....)))))).........((.(((....))).))))))((((((.(((((((.((.(....)..)))))))))..))))....(((.....)))...))... ( -33.20)
>DroEre_CAF1 65672 117 - 1
AACAAAAUGCUCGCUAAUCGAGCAAUUAAACACGUUUCGUAAUUGGCACUUAGGCGCCGAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGGAAGCAUU
.......((((((.....)))))).........(((((.......((((((.(((((......)))))...(....)))))))...((((.(......).)))).....)))))... ( -32.20)
>DroYak_CAF1 66309 117 - 1
AACAAAAUGCUCGCUAAUCGAGCAAUUAAACACGUUUCGUAAUUGGCACUUAGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUU
.......((((((.....))))))......((..((((((.....((......))((((.(((((((.((.(....)..)))))))))..)))).....))))))..))........ ( -32.20)
>consensus
AACAAAAUGCUCGCUAAUCGAGCAAUUAAACACGUUCCGUAAUUGGCACUUUGGCGCCCAAAUGCGCUGCAGGAAACAGGUGCGUAUUCAGGGCAGGACAUGAAGGAUGAAAGCAUU
.......((((((.....))))))........((((((.......((......))((((.(((((((.((.(....)..)))))))))..)))).))).)))...((((....)))) (-30.32 = -30.28 +  -0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:18:07 2006