Locus 918

Sequence ID 2L_DroMel_CAF1
Location 2,640,778 – 2,640,870
Length 92
Max. P 0.826944
window1477 window1478

overview

Window 7

Location 2,640,778 – 2,640,870
Length 92
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 82.01
Mean single sequence MFE -31.00
Consensus MFE -19.58
Energy contribution -20.54
Covariance contribution 0.96
Combinations/Pair 1.04
Mean z-score -1.75
Structure conservation index 0.63
SVM decision value 0.06
SVM RNA-class probability 0.561753
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2640778 92 + 22407834
CCACAACGCAAACAUAAGCAGGUGCACCGCGGCUGC----------------------------UCCUAUGGAACAGCUCCUUUGGAACACUUCCAGGAGUGCCCACUAAUGUGUUUCUU
....((((((......(((((.(((...))).))))----------------------------)....(((....((((((..(((.....)))))))))..)))....)))))).... ( -27.30)
>DroSec_CAF1 61426 92 + 1
CCACAACGCACACAUAAGCAGGUGCACCGCGGCAGC----------------------------UCCUGUGGAACAGCUCAUUUGGAACACUUCCAGGAGUGCCCACUAAUGUGUUUCUU
.........((((((.((..((.((.((((((....----------------------------..))))))....((((...((((.....)))).)))))))).)).))))))..... ( -26.50)
>DroSim_CAF1 62524 92 + 1
CCACAACGCACACAUAAGCAGGUUCACCGCGGCAGC----------------------------UCCUGUGGAACACCUCCUUUGGAACACUUCCAGGAGUGCCCACUAAUGUGUUUCUU
.........((((((..((.((....))))((((.(----------------------------(((((.(((...((......)).....))))))))))))).....))))))..... ( -27.50)
>DroEre_CAF1 69809 120 + 1
CCAAGCCGCACACAUAAGCAGGUGCACCACGGCAGCUCCUGUGGAACAGCUCCUGUGGAACAGCUCCUGUGGAACAGCUCCUUUGGAACACUUGCAGGAGUGCCCACUAAUGUGUUUCUU
.........((((((.((..((.((.((((((......))))))....(((((((..(....(.(((...(((.....)))...))).)..)..))))))))))).)).))))))..... ( -39.00)
>DroYak_CAF1 63885 100 + 1
CCACGGUGCACACAUAAGCAGGUGCACCACGGCAGC--------------------GGAACAGCUCCUUUGGAACAGCUCCUUGGGAACACUUCCAGGAGUGCCCACUAAUGUGUUUCUU
.((((((((((.(.......))))))))..((.(((--------------------......)))))..(((....((((((.((((....))))))))))..))).....)))...... ( -34.70)
>consensus
CCACAACGCACACAUAAGCAGGUGCACCGCGGCAGC____________________________UCCUGUGGAACAGCUCCUUUGGAACACUUCCAGGAGUGCCCACUAAUGUGUUUCUU
.........((((((.((..(((...((((((..................................))))))....((((((..(((.....))))))))))))..)).))))))..... (-19.58 = -20.54 +   0.96)

alignment

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secondary structure

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dotplot

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Window 8

Location 2,640,778 – 2,640,870
Length 92
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 82.01
Mean single sequence MFE -37.30
Consensus MFE -24.98
Energy contribution -25.34
Covariance contribution 0.36
Combinations/Pair 1.04
Mean z-score -2.03
Structure conservation index 0.67
SVM decision value 0.70
SVM RNA-class probability 0.826944
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2640778 92 - 22407834
AAGAAACACAUUAGUGGGCACUCCUGGAAGUGUUCCAAAGGAGCUGUUCCAUAGGA----------------------------GCAGCCGCGGUGCACCUGCUUAUGUUUGCGUUGUGG
......((((...(..((((.(((((((.....)))..))))((((((((...)))----------------------------))))).((((.....))))...))))..)..)))). ( -32.10)
>DroSec_CAF1 61426 92 - 1
AAGAAACACAUUAGUGGGCACUCCUGGAAGUGUUCCAAAUGAGCUGUUCCACAGGA----------------------------GCUGCCGCGGUGCACCUGCUUAUGUGUGCGUUGUGG
......(((....)))(((((((((((((..((((.....))))..))))..))))----------------------------).))))((..((((((.......).)))))..)).. ( -32.60)
>DroSim_CAF1 62524 92 - 1
AAGAAACACAUUAGUGGGCACUCCUGGAAGUGUUCCAAAGGAGGUGUUCCACAGGA----------------------------GCUGCCGCGGUGAACCUGCUUAUGUGUGCGUUGUGG
.....((((((.(((.((((((((((.......(((...)))((....)).)))))----------------------------).))))..((....)).))).))))))......... ( -31.10)
>DroEre_CAF1 69809 120 - 1
AAGAAACACAUUAGUGGGCACUCCUGCAAGUGUUCCAAAGGAGCUGUUCCACAGGAGCUGUUCCACAGGAGCUGUUCCACAGGAGCUGCCGUGGUGCACCUGCUUAUGUGUGCGGCUUGG
(((..((((((.(((((((((..(.(((...(((((...))))).(((((...(((((.(((((...))))).)))))...)))))))).)..)))).)).))).))))))....))).. ( -48.60)
>DroYak_CAF1 63885 100 - 1
AAGAAACACAUUAGUGGGCACUCCUGGAAGUGUUCCCAAGGAGCUGUUCCAAAGGAGCUGUUCC--------------------GCUGCCGUGGUGCACCUGCUUAUGUGUGCACCGUGG
......(((..((((((((((((((((((..(((((...)))))..))))..))))).)).)))--------------------))))....((((((((.......).)))))))))). ( -42.10)
>consensus
AAGAAACACAUUAGUGGGCACUCCUGGAAGUGUUCCAAAGGAGCUGUUCCACAGGA____________________________GCUGCCGCGGUGCACCUGCUUAUGUGUGCGUUGUGG
.....((((((.((..(((((((((((((..((((.....))))..))))..))))............................((....)).)))..))..)).))))))......... (-24.98 = -25.34 +   0.36)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:41 2006