Locus 1408

Sequence ID	X_DroMel_CAF1
Location	4,231,520 – 4,231,611
Length	91
Max. P	0.769237

overview

Window 7

Location	4,231,520 – 4,231,611
Length	91
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	77.77
Mean single sequence MFE	-29.42
Consensus MFE	-24.68
Energy contribution	-24.48
Covariance contribution	-0.19
Combinations/Pair	1.14
Mean z-score	-1.06
Structure conservation index	0.84
SVM decision value	0.46
SVM RNA-class probability	0.745464
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4231520 91 + 22224390
-----UAA----AUAUAUCCCCACUGGCAU--GAAGGAUGACGCCAAUUGGCCUGCGUUGCUUAGCGCCAACGAAAGGCGCUGCGGCCAACACACA----------GUCAGC
-----...----...........(((((.(--(..((......))..((((((.((...)).(((((((.......))))))).))))))....))----------))))). ( -28.10)
>DroPse_CAF1 19769 110 + 1
UACACCGAAAAGAAGUGGGACCCUGGGCAU--GAAGGAUGACGCCAAUUGGCCUGAGUUGCUUAGCGCCAACGCCAGGCGCUUCAGCCAACACACACAGCCCCAUUGCCAGC
.............((((((...((((((..--..........)))..(((((.((((.(((((.(((....))).))))).)))))))))......))).))))))...... ( -32.50)
>DroEre_CAF1 24484 91 + 1
-----UAA----AUAUAUCCCCACUGGCAU--GAAGGAUGACGCCAAUUGGCCUGCGUUGCUUAGCGCCAACGAAAGGCGCUGCGGCCAACACACA----------GUCAGC
-----...----...........(((((.(--(..((......))..((((((.((...)).(((((((.......))))))).))))))....))----------))))). ( -28.10)
>DroYak_CAF1 18630 91 + 1
-----UAA----AUAUAUCCACACUGGCAU--GAAGGAUGACGCCAAUUGGCCUGCGUUGCUUAGCGCCAACGAAAGGCGCUGCGGCCAACACACA----------GUCAGC
-----...----...........(((((.(--(..((......))..((((((.((...)).(((((((.......))))))).))))))....))----------))))). ( -28.10)
>DroAna_CAF1 21744 106 + 1
-----CAAAAAUAUAUAUCCCCACCGGCAUUUUAAGGAUGACGCCAAUUGGCCUGCGUUGCUUAGCGCCAAAGCCAGGCGCUACGGCCAACACACACACACACUUAGUCAG-
-----....................(((....((((..((..(((....))).((.(((((((((((((.......))))))).)).)))).))....))..)))))))..- ( -27.20)
>DroPer_CAF1 19414 110 + 1
UACACCGAAAAGAAGUGGGACCCUGGGCAU--GAAGGAUGACGCCAAUUGGCCUGAGUUGCUUAGCGCCAACGCCAGGCGCUUCAGCCAACACACACAGCCCCAUUGCCAGC
.............((((((...((((((..--..........)))..(((((.((((.(((((.(((....))).))))).)))))))))......))).))))))...... ( -32.50)
>consensus
_____CAA____AUAUAUCCCCACUGGCAU__GAAGGAUGACGCCAAUUGGCCUGCGUUGCUUAGCGCCAACGAAAGGCGCUGCGGCCAACACACA__________GUCAGC
.........................(((..............(((....))).((.(((((((((((((.......))))))).)).)))).))............)))... (-24.68 = -24.48 +  -0.19)

alignment

secondary structure

dotplot

Window 8

Location	4,231,520 – 4,231,611
Length	91
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	77.77
Mean single sequence MFE	-36.22
Consensus MFE	-25.90
Energy contribution	-25.04
Covariance contribution	-0.86
Combinations/Pair	1.21
Mean z-score	-1.27
Structure conservation index	0.72
SVM decision value	0.52
SVM RNA-class probability	0.769237
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4231520 91 - 22224390
GCUGAC----------UGUGUGUUGGCCGCAGCGCCUUUCGUUGGCGCUAAGCAACGCAGGCCAAUUGGCGUCAUCCUUC--AUGCCAGUGGGGAUAUAU----UUA-----
...(((----------.((..(((((((..((((((.......))))))..((...)).)))))))..)))))(((((.(--((....))))))))....----...----- ( -33.40)
>DroPse_CAF1 19769 110 - 1
GCUGGCAAUGGGGCUGUGUGUGUUGGCUGAAGCGCCUGGCGUUGGCGCUAAGCAACUCAGGCCAAUUGGCGUCAUCCUUC--AUGCCCAGGGUCCCACUUCUUUUCGGUGUA
(((((.(((((((((.((...(((((((..((.((.(((((....))))).))..))..))))))).(((((........--))))))).)))))))....)).)))))... ( -40.00)
>DroEre_CAF1 24484 91 - 1
GCUGAC----------UGUGUGUUGGCCGCAGCGCCUUUCGUUGGCGCUAAGCAACGCAGGCCAAUUGGCGUCAUCCUUC--AUGCCAGUGGGGAUAUAU----UUA-----
...(((----------.((..(((((((..((((((.......))))))..((...)).)))))))..)))))(((((.(--((....))))))))....----...----- ( -33.40)
>DroYak_CAF1 18630 91 - 1
GCUGAC----------UGUGUGUUGGCCGCAGCGCCUUUCGUUGGCGCUAAGCAACGCAGGCCAAUUGGCGUCAUCCUUC--AUGCCAGUGUGGAUAUAU----UUA-----
.....(----------(((((....((...((((((.......))))))..)).)))))).(((((((((((........--)))))))).)))......----...----- ( -33.30)
>DroAna_CAF1 21744 106 - 1
-CUGACUAAGUGUGUGUGUGUGUUGGCCGUAGCGCCUGGCUUUGGCGCUAAGCAACGCAGGCCAAUUGGCGUCAUCCUUAAAAUGCCGGUGGGGAUAUAUAUUUUUG-----
-......((((((((((.(((((((....(((((((.......)))))))..)))))))..((.((((((((..........)))))))).)).))))))))))...----- ( -37.20)
>DroPer_CAF1 19414 110 - 1
GCUGGCAAUGGGGCUGUGUGUGUUGGCUGAAGCGCCUGGCGUUGGCGCUAAGCAACUCAGGCCAAUUGGCGUCAUCCUUC--AUGCCCAGGGUCCCACUUCUUUUCGGUGUA
(((((.(((((((((.((...(((((((..((.((.(((((....))))).))..))..))))))).(((((........--))))))).)))))))....)).)))))... ( -40.00)
>consensus
GCUGAC__________UGUGUGUUGGCCGCAGCGCCUGGCGUUGGCGCUAAGCAACGCAGGCCAAUUGGCGUCAUCCUUC__AUGCCAGUGGGGAUAUAU____UUA_____
.................(((((((((((((((((((.......)))))).......)).))))))).(((((..........))))).......)))).............. (-25.90 = -25.04 +  -0.86)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:45 2006