Locus 496

Sequence ID	2R_DroMel_CAF1
Location	2,720,641 – 2,720,733
Length	92
Max. P	0.988626

overview

Window 5

Location	2,720,641 – 2,720,733
Length	92
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	75.60
Mean single sequence MFE	-23.20
Consensus MFE	-2.96
Energy contribution	-3.60
Covariance contribution	0.64
Combinations/Pair	1.31
Mean z-score	-2.46
Structure conservation index	0.13
SVM decision value	2.13
SVM RNA-class probability	0.988626
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2720641 92 + 20766785
UAUUUUAGCUUUUC-CGCUGGCGGCCUUUAACCCUGCACCAUCCGGCCAGCGGGAAAGCGGGAGAAAUUUUAAUGAAAAUUUU-CAACUUUAAU
.......(((((((-(((((((((..................)).))))))))))))))..(((((.((((...)))).))))-)......... ( -29.37)
>DroSec_CAF1 12309 94 + 1
UAUUCUAGCUUUUCCCGCUGGCGGCCUUUAACCCUGCACCAUCCGGCCAGCGGGAAAGCGGGAGAGAUUUUAAUGAAAAUUUUCCAACUUUAAU
.......(((((.(((((((((((..................)).))))))))))))))((((((..(((....)))..))))))......... ( -32.27)
>DroEre_CAF1 3770 81 + 1
UUUUUUAACUUUUC-CGCUGGCGGCCUUUAACCCUGCACCGUC----CAG--------CUGGAGAGAUUUUAAUGAAAAAUGUUAAACUUUAAU
...(((((((((((-(((((((((..............))).)----)))--------).))))))(((((.....)))))))))))....... ( -19.94)
>DroYak_CAF1 12581 84 + 1
UACUUUAGCUUUUC-CGCUGGCGGCCUUUAACCCGGCACCAUCCGGCCAG--------CGGGAGAGAUUUUAAUUAAAUGU-UUAAACUUUAAU
........((((((-(((((((((.......))(((......))))))))--------))))))))......((((((.((-....)))))))) ( -27.30)
>DroAna_CAF1 12008 83 + 1
UGUUUUAACUUUUC-UCUUGCCGACCUUUAAACCCACGAGAUACCGCCGA--------CGGGAAAUAUUUUAAUUAA--UUCGAAAACUUUAAU
.(((((......((-((.((..............)).))))..(((....--------)))................--....)))))...... (  -7.14)
>consensus
UAUUUUAGCUUUUC_CGCUGGCGGCCUUUAACCCUGCACCAUCCGGCCAG________CGGGAGAGAUUUUAAUGAAAAUUUUUAAACUUUAAU
........((((((.(((((((.......................)))))........))))))))............................ ( -2.96 =  -3.60 +   0.64)

alignment

secondary structure

dotplot

Window 6

Location	2,720,641 – 2,720,733
Length	92
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	75.60
Mean single sequence MFE	-22.10
Consensus MFE	-4.23
Energy contribution	-3.74
Covariance contribution	-0.49
Combinations/Pair	1.50
Mean z-score	-1.53
Structure conservation index	0.19
SVM decision value	-0.02
SVM RNA-class probability	0.520958
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2720641 92 - 20766785
AUUAAAGUUG-AAAAUUUUCAUUAAAAUUUCUCCCGCUUUCCCGCUGGCCGGAUGGUGCAGGGUUAAAGGCCGCCAGCG-GAAAAGCUAAAAUA
.........(-(((.(((.....))).))))....(((((.((((((((.((....((......))....)))))))))-).)))))....... ( -25.30)
>DroSec_CAF1 12309 94 - 1
AUUAAAGUUGGAAAAUUUUCAUUAAAAUCUCUCCCGCUUUCCCGCUGGCCGGAUGGUGCAGGGUUAAAGGCCGCCAGCGGGAAAAGCUAGAAUA
...((((((....))))))............((..((((((((((((((.((....((......))....))))))))))).)))))..))... ( -29.50)
>DroEre_CAF1 3770 81 - 1
AUUAAAGUUUAACAUUUUUCAUUAAAAUCUCUCCAG--------CUG----GACGGUGCAGGGUUAAAGGCCGCCAGCG-GAAAAGUUAAAAAA
.......(((((((((((.....)))))...(((.(--------(((----(.((((............))))))))))-))...))))))... ( -19.90)
>DroYak_CAF1 12581 84 - 1
AUUAAAGUUUAA-ACAUUUAAUUAAAAUCUCUCCCG--------CUGGCCGGAUGGUGCCGGGUUAAAGGCCGCCAGCG-GAAAAGCUAAAGUA
.....(((((..-..((((.....)))).....(((--------((((((((......)))(((.....))))))))))-)..)))))...... ( -23.80)
>DroAna_CAF1 12008 83 - 1
AUUAAAGUUUUCGAA--UUAAUUAAAAUAUUUCCCG--------UCGGCGGUAUCUCGUGGGUUUAAAGGUCGGCAAGA-GAAAAGUUAAAACA
....((.(((((...--................(((--------....)))..(((.((.(..(....)..).)).)))-))))).))...... ( -12.00)
>consensus
AUUAAAGUUUAAAAAUUUUCAUUAAAAUCUCUCCCG________CUGGCCGGAUGGUGCAGGGUUAAAGGCCGCCAGCG_GAAAAGCUAAAAUA
..........................((((..((.((......)).))..))))(((((..........).))))(((.......)))...... ( -4.23 =  -3.74 +  -0.49)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:12 2006