Locus 2647

Sequence ID	X_DroMel_CAF1
Location	7,082,731 – 7,082,848
Length	117
Max. P	0.985224

overview

Window 4

Location	7,082,731 – 7,082,848
Length	117
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	81.39
Mean single sequence MFE	-50.53
Consensus MFE	-29.50
Energy contribution	-32.46
Covariance contribution	2.96
Combinations/Pair	1.08
Mean z-score	-2.96
Structure conservation index	0.58
SVM decision value	2.00
SVM RNA-class probability	0.985224
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7082731 117 + 22224390
GCAGCAGCAACAAAGAGAAAAUCUGGCUUCGGCCAUGGCCGCUGGCAUGCG---UCAUCAUCCACUGUUGCCGCCGCCAGAGGCUAUGCACGCCAAUCCCUUCCAGCUGCUGCGCAUGCC
((((((((.....(((.....)))(((....((.((((((.(((((..(((---.((.((.....)).)).))).))))).))))))))..)))...........))))))))....... ( -49.30)
>DroPse_CAF1 24114 117 + 1
GCAGCAGCAGCAGCGCGAGAACCUCGCUUCGGCAAUGGCCGCCGGAAUGCG---GCAUCAUCCGCUGCUGGCGCCGCCAGAGGCGAUGCAUGCCAAUCCCUUCCAGCUGCUGCGCAUGCC
(((((.(((((((((((((...)))))((((((.......))))))....(---((((((((.(((.(((((...))))).))))))).)))))...........)))))))))).))). ( -60.40)
>DroWil_CAF1 166005 111 + 1
CCAACAAC---------AAAACUUGGCCUCGGCCAUGGCCGCUGGCAUGAGGCAUCAUCAUCCAUUGUUGCCCCCACCAGAGGCCAUGCAUGCCAAUCCCUUCCAGCUGCUGCGUAUGCC
........---------.......(((....)))((((((.((((...(.((((.((........)).)))))...)))).))))))((((((((...............)).)))))). ( -35.96)
>DroYak_CAF1 75196 117 + 1
GCAGCAGCAACAGAGAGAGAAUCUGGCAUCAGCCAUGGCCGCUGGCAUGCG---UCAUCAUCCGCUGCUGCCGCCGCCAGAGGCCAUGCACGCCAAUCCCUUCCAGCUGCUGCGCAUGCC
((((((((....(..((.((...((((....((.((((((.(((((..(((---.((.((.....)).)).))).))))).))))))))..)))).)).))..).))))))))....... ( -50.80)
>DroAna_CAF1 116110 117 + 1
GCAGCAGCAACAGCGCGAGAGCCUGGCCACUGCCAUGGCGGCUGGGAUGCG---GCACCAUCCGCUCCUGCCGCCACCGGAGGCCAUGCACCCGAAUCCCUUCCAGCUGCUGAGGAUGCC
.(((((((....((((....)).(((((.(((...(((((((.((((.(((---(......))))))))))))))).))).))))).))....(((....)))..)))))))........ ( -56.20)
>consensus
GCAGCAGCAACAGAGAGAGAACCUGGCCUCGGCCAUGGCCGCUGGCAUGCG___UCAUCAUCCGCUGCUGCCGCCGCCAGAGGCCAUGCACGCCAAUCCCUUCCAGCUGCUGCGCAUGCC
((((((((................(((....)))((((((.((((...(((....((........))....)))..)))).))))))..................))))))))....... (-29.50 = -32.46 +   2.96)

alignment

secondary structure

dotplot

Window 5

Location	7,082,731 – 7,082,848
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	81.39
Mean single sequence MFE	-58.00
Consensus MFE	-36.10
Energy contribution	-37.62
Covariance contribution	1.52
Combinations/Pair	1.23
Mean z-score	-2.76
Structure conservation index	0.62
SVM decision value	1.85
SVM RNA-class probability	0.979826
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7082731 117 - 22224390
GGCAUGCGCAGCAGCUGGAAGGGAUUGGCGUGCAUAGCCUCUGGCGGCGGCAACAGUGGAUGAUGA---CGCAUGCCAGCGGCCAUGGCCGAAGCCAGAUUUUCUCUUUGUUGCUGCUGC
.......((((((((..(((((((..(((.......)))((((((((((....).(((........---)))..)))..((((....))))..))))))...)))))))...)))))))) ( -55.00)
>DroPse_CAF1 24114 117 - 1
GGCAUGCGCAGCAGCUGGAAGGGAUUGGCAUGCAUCGCCUCUGGCGGCGCCAGCAGCGGAUGAUGC---CGCAUUCCGGCGGCCAUUGCCGAAGCGAGGUUCUCGCGCUGCUGCUGCUGC
.(((.((((((((((.....(((((((((((.((((((..(((((...)))))..)).))))))))---)).)))))..((((....))))..(((((...))))))))))))).))))) ( -61.20)
>DroWil_CAF1 166005 111 - 1
GGCAUACGCAGCAGCUGGAAGGGAUUGGCAUGCAUGGCCUCUGGUGGGGGCAACAAUGGAUGAUGAUGCCUCAUGCCAGCGGCCAUGGCCGAGGCCAAGUUUU---------GUUGUUGG
........(((((((..((..((.(((((...(((((((.((((((((((((.((........)).)))))).)))))).))))))))))))..))...))..---------))))))). ( -51.90)
>DroYak_CAF1 75196 117 - 1
GGCAUGCGCAGCAGCUGGAAGGGAUUGGCGUGCAUGGCCUCUGGCGGCGGCAGCAGCGGAUGAUGA---CGCAUGCCAGCGGCCAUGGCUGAUGCCAGAUUCUCUCUCUGUUGCUGCUGC
.....((((((((((.(..((((((((((((((((((((.(((((((((.((.((.....)).)).---))).)))))).)))))).))..)))))))..)))))..).)))))))).)) ( -61.60)
>DroAna_CAF1 116110 117 - 1
GGCAUCCUCAGCAGCUGGAAGGGAUUCGGGUGCAUGGCCUCCGGUGGCGGCAGGAGCGGAUGGUGC---CGCAUCCCAGCCGCCAUGGCAGUGGCCAGGCUCUCGCGCUGUUGCUGCUGC
........(((((((....((.(...((((.((.(((((..(.((((((((.(((((((......)---))).)))..)))))))).)....))))).)).))))).))...))))))). ( -60.30)
>consensus
GGCAUGCGCAGCAGCUGGAAGGGAUUGGCGUGCAUGGCCUCUGGCGGCGGCAGCAGCGGAUGAUGA___CGCAUGCCAGCGGCCAUGGCCGAAGCCAGGUUCUCGCGCUGUUGCUGCUGC
.......((((((((.(..((((.(((((..((((((((.(((((((((.((.((.....)).))....))).)))))).)))))).))....))))).))))..)...))))))))... (-36.10 = -37.62 +   1.52)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:00 2006