Locus 3332

Sequence ID	X_DroMel_CAF1
Location	8,901,366 – 8,901,486
Length	120
Max. P	0.778162

overview

Window 7

Location	8,901,366 – 8,901,486
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.06
Mean single sequence MFE	-46.08
Consensus MFE	-23.29
Energy contribution	-23.93
Covariance contribution	0.64
Combinations/Pair	1.36
Mean z-score	-2.01
Structure conservation index	0.51
SVM decision value	0.53
SVM RNA-class probability	0.771949
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8901366 120 + 22224390
AGUCUCUGGCCAAAUCGAGCUGCUGCUGCAGCCGAUUGACCUGCUCCGAUUGGCGCAGCUUGUGCUGCUUCAGCUGGAACUGCUGCAGUCCGAGUAGCUGCUCCAUCUUGCGCAGCUUCA
.......((...(((((.(((((....))))))))))..))(((((.(((((..(((((....)))))..((((.......))))))))).)))))(((((.(......).))))).... ( -48.60)
>DroVir_CAF1 22079 120 + 1
UGCAGCGCGUCAGAUCGAGCUGCUGCUGCAGCUUGUGCAGCUGCUCGGAUUGGCGCAGAUUGUGCUGCUUGAGCUGGAACUGCUGCAGGGCCAGCAGCUGCUCCAUUUUCUUGAACUUGA
.((((((((((((.((((((.(((((.((.....))))))).)))))).)))))))................(((((..(((...)))..))))).)))))................... ( -54.20)
>DroGri_CAF1 18046 120 + 1
UACAUCUGGUCAGGUCGAGUUGCUGCUGCAACUUGUGCAACUGCUCCGAUUGGCGCAAAUUGUGCUGUUUUAGCUGAAACUGUUGCAACGCCAGUAGCUGCUCCAAUUUCUUGAACUUCA
.........(((((..((((.(((((((.......((((((..........(((((.....)))))(((((....))))).))))))....))))))).))))......)))))...... ( -34.20)
>DroWil_CAF1 23258 120 + 1
UGCUGCGAGCGUGUUCCAACUGCUGCUGCAGCUUCUGUACCUGCUCCGAUUGCCGCAGCUUAUGCUGCUUUAAUUGGAACUGCUGAAGAGCCAAUAGCUGUUCCAUUUUCUUAAACUUCA
.(((((.((((.((.......)))))))))))..........((((((((((..(((((....)))))..))))))))...)).(((.(((.....))).)))................. ( -36.40)
>DroMoj_CAF1 22543 120 + 1
UGGUGCGCGUCAGGUCGAGCUGUUGCUGCAGUUUCUGGAGCUGCUCCGACUGGCGCAAGUUGUGCUGCUUCAGCUGGAACUGCUGCAGGGCGAGGAGCUGCUCCAUUUUCUUGAACUUCA
.........(((((..(((((((....))))))).((((((.(((((....(((....)))((.((((..(((......)))..)))).))..))))).))))))....)))))...... ( -47.00)
>DroAna_CAF1 15729 120 + 1
UGCAGUGGGCGUGGUCCAGUUGCUGCUGCAGUCGGCCGACGUGCUCUGACUGGCGCAGCUUGUGCUGCUUCAGCUGGAACUGCUGCAGCCCCAGGAGCUGCUCCAUCUUGCGCAGCUUCA
(((((..(((((((.((..((((....))))..)))).))))..(((..((((.(((((....))))).))))..))).)..)))))......((((((((.(......).)))))))). ( -56.10)
>consensus
UGCAGCGGGCCAGGUCGAGCUGCUGCUGCAGCUUGUGGACCUGCUCCGAUUGGCGCAGCUUGUGCUGCUUCAGCUGGAACUGCUGCAGCGCCAGUAGCUGCUCCAUUUUCUUGAACUUCA
.................(((((((((((((((..........(.((((.((((.((((......)))).)))).)))).).)))))))...))))))))..................... (-23.29 = -23.93 +   0.64)

alignment

secondary structure

dotplot

Window 8

Location	8,901,366 – 8,901,486
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.06
Mean single sequence MFE	-42.24
Consensus MFE	-21.61
Energy contribution	-21.78
Covariance contribution	0.17
Combinations/Pair	1.33
Mean z-score	-2.00
Structure conservation index	0.51
SVM decision value	0.55
SVM RNA-class probability	0.778162
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8901366 120 - 22224390
UGAAGCUGCGCAAGAUGGAGCAGCUACUCGGACUGCAGCAGUUCCAGCUGAAGCAGCACAAGCUGCGCCAAUCGGAGCAGGUCAAUCGGCUGCAGCAGCAGCUCGAUUUGGCCAGAGACU
....(((.((.....(((.((((((....(..((((..((((....))))..))))..).)))))).)))..)).))).((((((((((((((....))))).))).))))))....... ( -51.40)
>DroVir_CAF1 22079 120 - 1
UCAAGUUCAAGAAAAUGGAGCAGCUGCUGGCCCUGCAGCAGUUCCAGCUCAAGCAGCACAAUCUGCGCCAAUCCGAGCAGCUGCACAAGCUGCAGCAGCAGCUCGAUCUGACGCGCUGCA
....((((..((...((((((.(((((.......))))).))))))..))..((((......))))........)))).((((((.....)))))).(((((.((......)).))))). ( -48.60)
>DroGri_CAF1 18046 120 - 1
UGAAGUUCAAGAAAUUGGAGCAGCUACUGGCGUUGCAACAGUUUCAGCUAAAACAGCACAAUUUGCGCCAAUCGGAGCAGUUGCACAAGUUGCAGCAGCAACUCGACCUGACCAGAUGUA
.....(((((....)))))(((....(((((..((((((.......(((.....)))......(((.((....)).)))))))))(.((((((....)))))).)....).)))).))). ( -32.90)
>DroWil_CAF1 23258 120 - 1
UGAAGUUUAAGAAAAUGGAACAGCUAUUGGCUCUUCAGCAGUUCCAAUUAAAGCAGCAUAAGCUGCGGCAAUCGGAGCAGGUACAGAAGCUGCAGCAGCAGUUGGAACACGCUCGCAGCA
(((((....((..(((((.....)))))..)))))))...(((((.(((...(((((....)))))...))).)))))..........((((((((..............))).))))). ( -35.14)
>DroMoj_CAF1 22543 120 - 1
UGAAGUUCAAGAAAAUGGAGCAGCUCCUCGCCCUGCAGCAGUUCCAGCUGAAGCAGCACAACUUGCGCCAGUCGGAGCAGCUCCAGAAACUGCAGCAACAGCUCGACCUGACGCGCACCA
...............((((((.(((((......(((..((((....))))..)))(((.....))).......))))).)))))).....(((.((..(((......)))..)))))... ( -36.60)
>DroAna_CAF1 15729 120 - 1
UGAAGCUGCGCAAGAUGGAGCAGCUCCUGGGGCUGCAGCAGUUCCAGCUGAAGCAGCACAAGCUGCGCCAGUCAGAGCACGUCGGCCGACUGCAGCAGCAACUGGACCACGCCCACUGCA
....(((((((..(((((.((((((..((..(((((..((((....))))..))))).)))))))).))).))...))..(((....))).))))).(((..(((.......))).))). ( -48.80)
>consensus
UGAAGUUCAAGAAAAUGGAGCAGCUACUGGCCCUGCAGCAGUUCCAGCUGAAGCAGCACAAGCUGCGCCAAUCGGAGCAGGUCCACAAGCUGCAGCAGCAGCUCGACCUGACCCGCUGCA
....((((.......((((((.(((.(.......).))).))))))......((((......))))........)))).........((((((....))))))................. (-21.61 = -21.78 +   0.17)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:44 2006