Locus 9877

Sequence ID	3R_DroMel_CAF1
Location	26,344,363 – 26,344,455
Length	92
Max. P	0.990938

overview

Window 7

Location	26,344,363 – 26,344,455
Length	92
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	73.81
Mean single sequence MFE	-32.27
Consensus MFE	-21.04
Energy contribution	-21.71
Covariance contribution	0.67
Combinations/Pair	1.33
Mean z-score	-2.24
Structure conservation index	0.65
SVM decision value	2.18
SVM RNA-class probability	0.989678
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26344363 92 + 27905053
AUUCCCGCGGUUUCGGUCGAGGACCAAGGCACU--------UUGG---------UUCGGUGCAUUGGUCCUCCUUUGCUUCGCAUGCAAUCACACACACGGGCACACAC
...((((.(.........(((((((((.(((((--------....---------...))))).)))))))))..((((.......)))).......).))))....... ( -32.60)
>DroSec_CAF1 66410 92 + 1
AUUCCCGCGGUUUCGGUCGAGGACCAAGGCACU--------UUGG---------UUCGGUGCAUUGGUCCUCCGUUGCUUCGCAUGCAAGCACACACACGGGCACACAC
...((((.(.........(((((((((.(((((--------....---------...))))).))))))))).(((((((.(....)))))).)).).))))....... ( -34.70)
>DroSim_CAF1 71647 92 + 1
AUUCCCGCGGUUUCGGUCGAGGACCAAGGCACU--------UUGG---------UUCGGUGCAUUGGUCCUCCGUUGUUUUGCAUGCAAGCACACACACGGGCACACAC
...((((.(.........(((((((((.(((((--------....---------...))))).))))))))).((.((((((....)))).)))).).))))....... ( -32.40)
>DroEre_CAF1 74004 87 + 1
AUUCCCGCGGUUUCGGCCGAGGACCAAGCCACC--------UUGCUUCUUCAGCUUCGGUGCAUUGGUCCUC-UCCACUUCGCAUGCAA-------------CACACAC
......((((....((..(((((((((..((((--------..(((.....)))...))))..)))))))))-.))...))))......-------------....... ( -30.80)
>DroYak_CAF1 70288 86 + 1
AUUCCCGCGGUUUCGGUCCAGGACCAAGGCACU--------UUGG---------UUCGGUGCACUGGUCCUGGUUUACUUCGCAUGCAAGCACACA------CAGACAC
......((((.......(((((((((..(((((--------....---------...)))))..)))))))))......)))).............------....... ( -30.62)
>DroAna_CAF1 85594 92 + 1
AUUC-CGCGGUUGCAGGCGGAGGCCAAGGCAGCUGCCGCACUUGC---------AUC--UGCAUUAACCCCCCGUGG---CACAUGCAAGCACACCGAU--ACACACAU
....-..(((((((.(((((..((....))..))))))))(((((---------((.--(((....((.....)).)---)).)))))))...))))..--........ ( -32.50)
>consensus
AUUCCCGCGGUUUCGGUCGAGGACCAAGGCACU________UUGG_________UUCGGUGCAUUGGUCCUCCGUUGCUUCGCAUGCAAGCACACACAC__GCACACAC
......((((...(((..(((((((((.(((((........................))))).)))))))))..)))..)))).......................... (-21.04 = -21.71 +   0.67)

alignment

secondary structure

dotplot

Window 8

Location	26,344,363 – 26,344,455
Length	92
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	73.81
Mean single sequence MFE	-35.68
Consensus MFE	-24.83
Energy contribution	-23.69
Covariance contribution	-1.13
Combinations/Pair	1.41
Mean z-score	-2.25
Structure conservation index	0.70
SVM decision value	2.24
SVM RNA-class probability	0.990938
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26344363 92 - 27905053
GUGUGUGCCCGUGUGUGUGAUUGCAUGCGAAGCAAAGGAGGACCAAUGCACCGAA---------CCAA--------AGUGCCUUGGUCCUCGACCGAAACCGCGGGAAU
.......((((((.((....((((.......))))..(((((((((.((((....---------....--------.)))).))))))))).......))))))))... ( -36.00)
>DroSec_CAF1 66410 92 - 1
GUGUGUGCCCGUGUGUGUGCUUGCAUGCGAAGCAACGGAGGACCAAUGCACCGAA---------CCAA--------AGUGCCUUGGUCCUCGACCGAAACCGCGGGAAU
.......((((((.((.((((((....).)))))...(((((((((.((((....---------....--------.)))).))))))))).......))))))))... ( -37.50)
>DroSim_CAF1 71647 92 - 1
GUGUGUGCCCGUGUGUGUGCUUGCAUGCAAAACAACGGAGGACCAAUGCACCGAA---------CCAA--------AGUGCCUUGGUCCUCGACCGAAACCGCGGGAAU
.......((((((((((((....))))))........(((((((((.((((....---------....--------.)))).))))))))).........))))))... ( -37.20)
>DroEre_CAF1 74004 87 - 1
GUGUGUG-------------UUGCAUGCGAAGUGGA-GAGGACCAAUGCACCGAAGCUGAAGAAGCAA--------GGUGGCUUGGUCCUCGGCCGAAACCGCGGGAAU
((((...-------------..))))(((...(((.-(((((((((.(((((...(((.....)))..--------))).)))))))))))..)))....)))...... ( -35.10)
>DroYak_CAF1 70288 86 - 1
GUGUCUG------UGUGUGCUUGCAUGCGAAGUAAACCAGGACCAGUGCACCGAA---------CCAA--------AGUGCCUUGGUCCUGGACCGAAACCGCGGGAAU
...((((------((.((((......))........((((((((((.((((....---------....--------.)))).))))))))))......))))))))... ( -32.90)
>DroAna_CAF1 85594 92 - 1
AUGUGUGU--AUCGGUGUGCUUGCAUGUG---CCACGGGGGGUUAAUGCA--GAU---------GCAAGUGCGGCAGCUGCCUUGGCCUCCGCCUGCAACCGCG-GAAU
.((((.((--((..((((....)))))))---)))))(((((((((.(((--(.(---------((.......))).)))).)))))))))..((((....)))-)... ( -35.40)
>consensus
GUGUGUGC__GUGUGUGUGCUUGCAUGCGAAGCAAAGGAGGACCAAUGCACCGAA_________CCAA________AGUGCCUUGGUCCUCGACCGAAACCGCGGGAAU
((((((................)))))).........(((((((((.((((..........................)))).)))))))))..(((......))).... (-24.83 = -23.69 +  -1.13)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:44:02 2006