Locus 2938

Sequence ID	2L_DroMel_CAF1
Location	8,434,304 – 8,434,410
Length	106
Max. P	0.752008

overview

Window 3

Location	8,434,304 – 8,434,410
Length	106
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	77.36
Mean single sequence MFE	-41.38
Consensus MFE	-23.59
Energy contribution	-24.48
Covariance contribution	0.89
Combinations/Pair	1.34
Mean z-score	-1.71
Structure conservation index	0.57
SVM decision value	0.37
SVM RNA-class probability	0.708544
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8434304 106 + 22407834
UUGGAGACACAACGGAGCAUUGGCCGCCGCCGGUGGCAACUGUUCCAAAGUCUCCUGUUGCAGUUUCGCCGCCAAGGAGCGGCGCACCAAUUUCUCAAUAAAAGUG
..((((((.....((((((...((((((...))))))...))))))...))))))(((((.((...((((((......)))))).........)))))))...... ( -39.80)
>DroPse_CAF1 7095 106 + 1
CUGCAGGCAGAGCGGCAGAUUGGCGGCGGGCGGCGGCAGCUGUUCAAUGGUGUCCUGGUGGAGCUUUACUGCCACAGAACGGCGCACCAGUCGCUCCACAAACAUG
((((..((...)).))))...(((((((((((((....)))))))..((((((.(((.((..((......))..))...))).))))))))))))........... ( -40.30)
>DroEre_CAF1 7284 106 + 1
UUGGAGAAACAACGGAGCAUUGGCCGCCGCCGGUGGCAACUGUUCCAAAGUCUCCUGUUGCAGCUUCGCCGCCAAGGAGCGGCGAACCAAUCUCUCCACAAAAGUG
.((((((..((((((((((...((((((...))))))...))))))..((....))))))..(.((((((((......)))))))).)....))))))........ ( -43.60)
>DroYak_CAF1 7368 106 + 1
UAGGAGACACAAUGAAGCAUUGGCCGCCGCCGGUGGUAACUGUUCCAAAGUCUCCUGUUGCAGUUUCGCCGCCAAUGAGCGGCGUACCAAUCUCUCCACAAAAGUG
..(((((..(((((...)))))(((((((..((((((((((((..((........))..))))))..))))))..)).))))).........)))))......... ( -38.90)
>DroAna_CAF1 7700 106 + 1
UAGCAGGCACAGGGAAGCAUUCGCCGCCGCCGGGGGCAGCUCCUCCACAGAAUCGUGCUGGAGCUUAGCCGCCACCGAGCGGCGAACCAAUUUUUCCACAAAUGUG
.......((((.(((((..((((((((((..((.(((((((((..(((......)))..))))))..))).))..)).))))))))......))))).....)))) ( -46.00)
>DroPer_CAF1 7061 106 + 1
CUGCAGGCAGAGCGGCACAUUGGCGGCGGGCGGCGGCAGCUGUUCAAUGGUGUCCUGGUGGAGCUUUACUGCCACAGAACGGCGCACCAGUCGCUCCACAAACAUG
...((((((..((.((......)).))(((((((....))))))).....)).))))(((((((....(((...)))...(((......))))))))))....... ( -39.70)
>consensus
UUGCAGACACAACGGAGCAUUGGCCGCCGCCGGUGGCAACUGUUCCAAAGUCUCCUGUUGCAGCUUCGCCGCCAAAGAGCGGCGCACCAAUCUCUCCACAAAAGUG
.............((((.(((((.((((((.((((((((((((..((........))..))))))..)))))).....))))))..)))))))))........... (-23.59 = -24.48 +   0.89)

alignment

secondary structure

dotplot

Window 4

Location	8,434,304 – 8,434,410
Length	106
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	77.36
Mean single sequence MFE	-42.58
Consensus MFE	-23.76
Energy contribution	-24.68
Covariance contribution	0.92
Combinations/Pair	1.36
Mean z-score	-1.82
Structure conservation index	0.56
SVM decision value	0.48
SVM RNA-class probability	0.752008
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 8434304 106 - 22407834
CACUUUUAUUGAGAAAUUGGUGCGCCGCUCCUUGGCGGCGAAACUGCAACAGGAGACUUUGGAACAGUUGCCACCGGCGGCGGCCAAUGCUCCGUUGUGUCUCCAA
..........((((....(((.(((((((....)))))))..)))(((((.((((...((((....((((((...))))))..))))..))))))))).))))... ( -41.40)
>DroPse_CAF1 7095 106 - 1
CAUGUUUGUGGAGCGACUGGUGCGCCGUUCUGUGGCAGUAAAGCUCCACCAGGACACCAUUGAACAGCUGCCGCCGCCCGCCGCCAAUCUGCCGCUCUGCCUGCAG
..(((..(..(((((.(.((((((.((..(.((((((((.....(((....)))((....))....)))))))).)..)).)))..))).).)))))..)..))). ( -38.10)
>DroEre_CAF1 7284 106 - 1
CACUUUUGUGGAGAGAUUGGUUCGCCGCUCCUUGGCGGCGAAGCUGCAACAGGAGACUUUGGAACAGUUGCCACCGGCGGCGGCCAAUGCUCCGUUGUUUCUCCAA
........(((((((...(.(((((((((....))))))))).).(((((.((((...((((....((((((...))))))..))))..)))))))))))))))). ( -49.80)
>DroYak_CAF1 7368 106 - 1
CACUUUUGUGGAGAGAUUGGUACGCCGCUCAUUGGCGGCGAAACUGCAACAGGAGACUUUGGAACAGUUACCACCGGCGGCGGCCAAUGCUUCAUUGUGUCUCCUA
(((....((((((..((((((.(((((((....((.((...((((((((.((....)))))...))))).)).))))))))))))))).)))))).)))....... ( -39.30)
>DroAna_CAF1 7700 106 - 1
CACAUUUGUGGAAAAAUUGGUUCGCCGCUCGGUGGCGGCUAAGCUCCAGCACGAUUCUGUGGAGGAGCUGCCCCCGGCGGCGGCGAAUGCUUCCCUGUGCCUGCUA
((((...(.((((..(((.((.((((((.(((.(((((((...(((((.((......))))))).))))))).))))))))))).)))..)))))))))....... ( -49.00)
>DroPer_CAF1 7061 106 - 1
CAUGUUUGUGGAGCGACUGGUGCGCCGUUCUGUGGCAGUAAAGCUCCACCAGGACACCAUUGAACAGCUGCCGCCGCCCGCCGCCAAUGUGCCGCUCUGCCUGCAG
..(((..(..((((((((((((.((.(..(.((((((((.....(((....)))((....))....)))))))).)..))))))))..))..)))))..)..))). ( -37.90)
>consensus
CACUUUUGUGGAGAGAUUGGUGCGCCGCUCCGUGGCGGCGAAGCUCCAACAGGAGACUUUGGAACAGCUGCCACCGGCGGCGGCCAAUGCUCCGCUGUGCCUCCAA
.......((((((...(((((.(((((((...(((((((...........................)))))))..))))))))))))..))))))........... (-23.76 = -24.68 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:01 2006