Locus 3181

Sequence ID	X_DroMel_CAF1
Location	8,442,873 – 8,442,969
Length	96
Max. P	0.649441

overview

Window 0

Location	8,442,873 – 8,442,969
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	81.63
Mean single sequence MFE	-34.60
Consensus MFE	-21.96
Energy contribution	-22.02
Covariance contribution	0.06
Combinations/Pair	1.17
Mean z-score	-1.86
Structure conservation index	0.63
SVM decision value	0.24
SVM RNA-class probability	0.649441
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8442873 96 + 22224390
GAAACGAUGCCGGUGGCCAGCAGCGGUGUGACCAACAGCCUGGCCAACAUCGGAUCCUCGCUGAAGUUCACGUUCGGGUAACUCCGGCGUUCCACA
.....((((....(((((((..((.((.......)).))))))))).))))(((....(((((.((((.((......)))))).))))).)))... ( -33.30)
>DroVir_CAF1 5191 90 + 1
GAGACGAUGCCAGUGGCCAGCAGCGGGGUUACCCACAGUCUGGCCAACAUUGGCUCCUCGCUGAAGUUUACAUUCGGGUAACUAAGUCGU------
..(((((.(((((((((((((.(.(((....))).).).)))))))...)))))))....(((((.......)))))........)))..------ ( -32.90)
>DroGri_CAF1 62036 92 + 1
GAGACGAUGCCAGUGGCCAGCAGUGGGGUCACCCACAGUCUGGCCAAUAUUGGCUCCUCGCUCAAGUUCACUUUCGGGUAACUAAAUCGC----CA
(((.(((.(((((((((((((.(((((....))))).).)))))))...)))))...)))))).((((.(((....))))))).......----.. ( -38.10)
>DroMoj_CAF1 95348 90 + 1
GAGACGAUGCCCGUGGCCAGCAGCGGCGUCACCCACAGCCUGGCCAACAUUGGCUCCUCGCUCAAAUUCACAUUCGGGUAACUAAGUCGC------
..(((..((((((((((((((.(.((......)).).).)))))))...(((((.....)).))).........)))))).....)))..------ ( -28.40)
>DroAna_CAF1 4185 96 + 1
GAGACGAUGCCGGUGGCUAGCAGCGGAGUGACUCACAGCCUGGCCAAUAUCGGCUCCUCGCUGAAGUUCACGUUCGGGUAACUUCGGCCUUCCAAA
(((..((.((((((((((((..((.(((...)))...)))))))))...))))))))))(((((((((.((......)))))))))))........ ( -35.80)
>DroPer_CAF1 5227 91 + 1
GAGACGAUGCCGGUGGCCAGCAGUGGGGUGACCCACAGCCUGGCCAAUAUCGGAUCAUCGCUGAAGUUUACAUUCGGGUAAC-----CAUCCAUCG
.((.(((((((((((((((((.(((((....))))).).)))))))...))))..)))))))(((.......)))((((...-----.)))).... ( -39.10)
>consensus
GAGACGAUGCCGGUGGCCAGCAGCGGGGUGACCCACAGCCUGGCCAACAUCGGCUCCUCGCUGAAGUUCACAUUCGGGUAACUAAGUCGU____CA
(((.(((((....((((((((.(.((......)).).).))))))).))))).)))....(((((.......)))))................... (-21.96 = -22.02 +   0.06)

alignment

secondary structure

dotplot

Window 1

Location	8,442,873 – 8,442,969
Length	96
Sequences	6
Columns	96
Reading direction	reverse
Mean pairwise identity	81.63
Mean single sequence MFE	-34.05
Consensus MFE	-24.99
Energy contribution	-25.22
Covariance contribution	0.22
Combinations/Pair	1.12
Mean z-score	-1.30
Structure conservation index	0.73
SVM decision value	0.05
SVM RNA-class probability	0.560551
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8442873 96 - 22224390
UGUGGAACGCCGGAGUUACCCGAACGUGAACUUCAGCGAGGAUCCGAUGUUGGCCAGGCUGUUGGUCACACCGCUGCUGGCCACCGGCAUCGUUUC
.......(((.((((((((......))).))))).)))..((..(((((((((((((.(.((.((.....)))).))))))))...))))))..)) ( -34.40)
>DroVir_CAF1 5191 90 - 1
------ACGACUUAGUUACCCGAAUGUAAACUUCAGCGAGGAGCCAAUGUUGGCCAGACUGUGGGUAACCCCGCUGCUGGCCACUGGCAUCGUCUC
------..(((.......((((..((.......)).)).)).((((....(((((((...(((((....)))))..))))))).))))...))).. ( -32.70)
>DroGri_CAF1 62036 92 - 1
UG----GCGAUUUAGUUACCCGAAAGUGAACUUGAGCGAGGAGCCAAUAUUGGCCAGACUGUGGGUGACCCCACUGCUGGCCACUGGCAUCGUCUC
.(----(((((.......((((.(((....)))...)).)).((((....(((((((...(((((....)))))..))))))).)))))))))).. ( -40.90)
>DroMoj_CAF1 95348 90 - 1
------GCGACUUAGUUACCCGAAUGUGAAUUUGAGCGAGGAGCCAAUGUUGGCCAGGCUGUGGGUGACGCCGCUGCUGGCCACGGGCAUCGUCUC
------((.......((((......))))......))((.(((((...((.((((((.(.((((......)))).))))))))).))).)).)).. ( -31.02)
>DroAna_CAF1 4185 96 - 1
UUUGGAAGGCCGAAGUUACCCGAACGUGAACUUCAGCGAGGAGCCGAUAUUGGCCAGGCUGUGAGUCACUCCGCUGCUAGCCACCGGCAUCGUCUC
........((.((((((((......))).))))).))((.((((((....((((..(((.(((........))).))).)))).)))).)).)).. ( -30.00)
>DroPer_CAF1 5227 91 - 1
CGAUGGAUG-----GUUACCCGAAUGUAAACUUCAGCGAUGAUCCGAUAUUGGCCAGGCUGUGGGUCACCCCACUGCUGGCCACCGGCAUCGUCUC
.(.((((..-----.((((......))))..)))).)(((((((((....(((((((.(.(((((....))))).)))))))).))).)))))).. ( -35.30)
>consensus
UG____ACGACUUAGUUACCCGAAUGUGAACUUCAGCGAGGAGCCAAUAUUGGCCAGGCUGUGGGUCACCCCGCUGCUGGCCACCGGCAUCGUCUC
...............((((......))))......((((...((((....(((((((.(.((((......)))).)))))))).)))).))))... (-24.99 = -25.22 +   0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:11 2006