Locus 2287

Sequence ID	3L_DroMel_CAF1
Location	6,437,153 – 6,437,262
Length	109
Max. P	0.999490

overview

Window 5

Location	6,437,153 – 6,437,262
Length	109
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	92.27
Mean single sequence MFE	-35.89
Consensus MFE	-33.31
Energy contribution	-32.99
Covariance contribution	-0.32
Combinations/Pair	1.06
Mean z-score	-2.22
Structure conservation index	0.93
SVM decision value	3.65
SVM RNA-class probability	0.999490
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6437153 109 + 23771897
CUGAAA----AUUCUUGAAAUUCCCCUCACGAGAGCAUCUCCGCUGAACCAACCGCUCUGUGGGAUGGGAUAUGGCAUGGCAUUUAGCCGUUUGCCGUAUUUGAUUUCCAGGA
......----.((((.((((((((((((((.(((((..................))))))))))..)))((((((((((((.....))))..))))))))..)))))).)))) ( -35.17)
>DroSec_CAF1 175035 113 + 1
CUGAAAAUACAUUCUUGAAAUUCCCCUCACGAGAGCAUCUCCGCUGAACCAUCCGCUCUGUGGGAUGGGAUAUGGCAUGGCAUUUAGCCGUUUGCCGUAUUUGAUUUCCAGGA
...........((((.((((((((((((((.(((((..................))))))))))..)))((((((((((((.....))))..))))))))..)))))).)))) ( -35.17)
>DroSim_CAF1 180901 113 + 1
UUGAAACUACAUUCUUGAAAUUCCCCUCACGAGAGCAUCUCCGCUGAACCAUCCGCUCUGUGGGAUGGGAUAUGGCAUGGCAUUUAGCCGUUUGCCGUAUUUGAUUUCCAGGA
...........((((.((((((((((((((.(((((..................))))))))))..)))((((((((((((.....))))..))))))))..)))))).)))) ( -35.17)
>DroEre_CAF1 180196 113 + 1
CUGGAAACACAUUCUUGAAAUUCCCCGCACGAGAGCAUCUCUGACUAACCAUCCGCUCUGUGGGAUGGGAUAUGGCAUGGCAUUUAGCCGUUUGCCGUAUUUGAUUUCCAGGA
(((((((................((((((...((((..................)))))))))).(.((((((((((((((.....))))..)))))))))).)))))))).. ( -38.07)
>DroYak_CAF1 189795 109 + 1
UUCGAA----AUUCUUGAAAUUCCCCUCACGAGAGCACCUCUGCCAAACCAUCCGCUCCGUGGGAUGGAAUAUGGCAUGGCAUUUAGCCGUUUGCCGUAUUUGAUUUCCAGGA
......----.((((.((((((...((((((.((((..................))))))))))...((((((((((((((.....))))..)))))))))))))))).)))) ( -35.87)
>consensus
CUGAAA__ACAUUCUUGAAAUUCCCCUCACGAGAGCAUCUCCGCUGAACCAUCCGCUCUGUGGGAUGGGAUAUGGCAUGGCAUUUAGCCGUUUGCCGUAUUUGAUUUCCAGGA
...........((((.((((((..((.((((.((((..................))))))))))...((((((((((((((.....))))..)))))))))))))))).)))) (-33.31 = -32.99 +  -0.32)

alignment

secondary structure

dotplot

Window 6

Location	6,437,153 – 6,437,262
Length	109
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	92.27
Mean single sequence MFE	-35.24
Consensus MFE	-30.44
Energy contribution	-29.88
Covariance contribution	-0.56
Combinations/Pair	1.10
Mean z-score	-1.96
Structure conservation index	0.86
SVM decision value	2.09
SVM RNA-class probability	0.987754
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6437153 109 - 23771897
UCCUGGAAAUCAAAUACGGCAAACGGCUAAAUGCCAUGCCAUAUCCCAUCCCACAGAGCGGUUGGUUCAGCGGAGAUGCUCUCGUGAGGGGAAUUUCAAGAAU----UUUCAG
..(((((((((......((((...(((.....))).))))...((((....(((((((((.((.(.....).))..)))))).)))..)))).......).))----)))))) ( -34.90)
>DroSec_CAF1 175035 113 - 1
UCCUGGAAAUCAAAUACGGCAAACGGCUAAAUGCCAUGCCAUAUCCCAUCCCACAGAGCGGAUGGUUCAGCGGAGAUGCUCUCGUGAGGGGAAUUUCAAGAAUGUAUUUUCAG
..((((((((((.....((((...(((.....))).)))).....(((((((.....).)))))).......(((((..((((....)))).))))).....)).)))))))) ( -35.20)
>DroSim_CAF1 180901 113 - 1
UCCUGGAAAUCAAAUACGGCAAACGGCUAAAUGCCAUGCCAUAUCCCAUCCCACAGAGCGGAUGGUUCAGCGGAGAUGCUCUCGUGAGGGGAAUUUCAAGAAUGUAGUUUCAA
.((((((..........((((...(((.....))).)))).....(((((((.....).))))))))))).)(((((..((((....)))).)))))..(((......))).. ( -33.40)
>DroEre_CAF1 180196 113 - 1
UCCUGGAAAUCAAAUACGGCAAACGGCUAAAUGCCAUGCCAUAUCCCAUCCCACAGAGCGGAUGGUUAGUCAGAGAUGCUCUCGUGCGGGGAAUUUCAAGAAUGUGUUUCCAG
..((((((((((.....((((...(((.....))).))))...((((....(((((((((..(((....)))....)))))).)))..))))..........)).)))))))) ( -37.60)
>DroYak_CAF1 189795 109 - 1
UCCUGGAAAUCAAAUACGGCAAACGGCUAAAUGCCAUGCCAUAUUCCAUCCCACGGAGCGGAUGGUUUGGCAGAGGUGCUCUCGUGAGGGGAAUUUCAAGAAU----UUCGAA
((.(((((.((......((((...(((.....))).(((((....(((((((.....).))))))..)))))....))))(((....))))).))))).))..----...... ( -35.10)
>consensus
UCCUGGAAAUCAAAUACGGCAAACGGCUAAAUGCCAUGCCAUAUCCCAUCCCACAGAGCGGAUGGUUCAGCGGAGAUGCUCUCGUGAGGGGAAUUUCAAGAAUGU__UUUCAG
((.(((((.........((((...(((.....))).))))...((((....(((((((((..((......))....)))))).)))..)))).))))).))............ (-30.44 = -29.88 +  -0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:28:44 2006