Locus 3507

Sequence ID	2R_DroMel_CAF1
Location	11,746,077 – 11,746,195
Length	118
Max. P	0.913816

overview

Window 4

Location	11,746,077 – 11,746,195
Length	118
Sequences	5
Columns	118
Reading direction	forward
Mean pairwise identity	88.22
Mean single sequence MFE	-32.64
Consensus MFE	-27.88
Energy contribution	-29.00
Covariance contribution	1.12
Combinations/Pair	1.12
Mean z-score	-1.47
Structure conservation index	0.85
SVM decision value	0.32
SVM RNA-class probability	0.688914
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11746077 118 + 20766785
AUCAAAAGAAUAUUCCCCUGUUGCACAGACUCAAAAGGAGCACAAGCCACAGUCUCCUUCCAAGGGAGAUGCUCGUAUUGUUCCGGCAAGAUCCAGAACUUAUACACGCACCUUGGAU
.............(((.(((.....)))......((((.((...(((....(((((((.....)))))))))).((((.((((.((......)).))))..))))..)).))))))). ( -29.40)
>DroSec_CAF1 12730 118 + 1
AUCAAAAGAAUAUUCCCCUGUUGCACAGGCUAAAAAGGAGCACAAGCCCCCGUCUCCUUCCAAGGGAGAUGCUCGUGUUGUUCCAGCAAGAUCCAGAACUUACACCCGCACCUUGGAU
.............(((((((.....)))).....((((.((.........((((((((.....))))))))...((((.((((............))))..))))..)).))))))). ( -30.10)
>DroSim_CAF1 8954 118 + 1
AUCAAAAGAAUAUUCCCCUGUUGCACAGGCUAAAAAGGAGCACAAGCCCCCGUCUCCUUCCAAGGGAGAUGCUCGUGUUGUUCCGGCGAGAGCCAGAACUUAUACCCGCACCUUGGAU
.............(((((((.....)))).....(((((((((.(((....(((((((.....)))))))))).)))))((((.(((....))).))))...........))))))). ( -39.10)
>DroEre_CAF1 22583 118 + 1
UUCAAAGGAAUAUUCCCCUGUUGCUCAGGCUAAAAAGGAGCACAAGUCCAACUCUCUUUCCAAAGGAGAUGCUCGUGCUGUUCCGGCAAGAGCCAGAACUUAUACCCGCACCUUGGAU
.((.((((........((((.....)))).......(((((((.(((.....((((((.....)))))).))).)))))((((.(((....))).))))......))...)))).)). ( -32.70)
>DroYak_CAF1 13132 118 + 1
UCCUAAGGCAUAUUCCCCUGUUGCUCAGCCCAAAAAGGAGCACAAGUCCAACUCUCCUGGCAAAGGCGACGCUCGUGCUAUUCCGGCAAGGGCCAGAACUUAUACCCGCACCUUGGAU
..((((((...........((((((..(((.....(((((....((.....))))))))))...))))))((((.((((.....)))).)))).................)))))).. ( -31.90)
>consensus
AUCAAAAGAAUAUUCCCCUGUUGCACAGGCUAAAAAGGAGCACAAGCCCCAGUCUCCUUCCAAGGGAGAUGCUCGUGUUGUUCCGGCAAGAGCCAGAACUUAUACCCGCACCUUGGAU
.............(((((((.....)))).....(((((((((.(((....(((((((.....)))))))))).)))))((((.(((....))).))))...........))))))). (-27.88 = -29.00 +   1.12)

alignment

secondary structure

dotplot

Window 5

Location	11,746,077 – 11,746,195
Length	118
Sequences	5
Columns	118
Reading direction	reverse
Mean pairwise identity	88.22
Mean single sequence MFE	-42.82
Consensus MFE	-32.52
Energy contribution	-33.48
Covariance contribution	0.96
Combinations/Pair	1.16
Mean z-score	-2.20
Structure conservation index	0.76
SVM decision value	1.09
SVM RNA-class probability	0.913816
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11746077 118 - 20766785
AUCCAAGGUGCGUGUAUAAGUUCUGGAUCUUGCCGGAACAAUACGAGCAUCUCCCUUGGAAGGAGACUGUGGCUUGUGCUCCUUUUGAGUCUGUGCAACAGGGGAAUAUUCUUUUGAU
.(((.((((((.(((((..(((((((......))))))).))))).))))))..((..(((((((((........)).)))))))..))((((.....)))))))............. ( -41.00)
>DroSec_CAF1 12730 118 - 1
AUCCAAGGUGCGGGUGUAAGUUCUGGAUCUUGCUGGAACAACACGAGCAUCUCCCUUGGAAGGAGACGGGGGCUUGUGCUCCUUUUUAGCCUGUGCAACAGGGGAAUAUUCUUUUGAU
.((((((((((..((((..((((..(......)..)))).))))..)))....)))))))((((((.((((((....))))))......((((.....)))).......))))))... ( -42.00)
>DroSim_CAF1 8954 118 - 1
AUCCAAGGUGCGGGUAUAAGUUCUGGCUCUCGCCGGAACAACACGAGCAUCUCCCUUGGAAGGAGACGGGGGCUUGUGCUCCUUUUUAGCCUGUGCAACAGGGGAAUAUUCUUUUGAU
.......(..(((((....((((((((....)))))))).....((((((..((((((........))))))...)))))).......)))))..)..(((((((....))))))).. ( -46.60)
>DroEre_CAF1 22583 118 - 1
AUCCAAGGUGCGGGUAUAAGUUCUGGCUCUUGCCGGAACAGCACGAGCAUCUCCUUUGGAAAGAGAGUUGGACUUGUGCUCCUUUUUAGCCUGAGCAACAGGGGAAUAUUCCUUUGAA
.......((.(((((....((((((((....))))))))(((((((((..(((.(((....))))))...).))))))))........))))).))..(((((((....))))))).. ( -45.20)
>DroYak_CAF1 13132 118 - 1
AUCCAAGGUGCGGGUAUAAGUUCUGGCCCUUGCCGGAAUAGCACGAGCGUCGCCUUUGCCAGGAGAGUUGGACUUGUGCUCCUUUUUGGGCUGAGCAACAGGGGAAUAUGCCUUAGGA
.((((((((((..((....((((((((....))))))))...))..)).((.((((((((((..(((..((((....).)))..)))...))).)))).))).))....))))).))) ( -39.30)
>consensus
AUCCAAGGUGCGGGUAUAAGUUCUGGCUCUUGCCGGAACAACACGAGCAUCUCCCUUGGAAGGAGACUGGGGCUUGUGCUCCUUUUUAGCCUGUGCAACAGGGGAAUAUUCUUUUGAU
.......(..(((((....((((((((....))))))))..(((((((.(((((.......))))).....)))))))..........)))))..)..((((((......)))))).. (-32.52 = -33.48 +   0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:13 2006