Locus 4773

Sequence ID	2L_DroMel_CAF1
Location	13,636,024 – 13,636,119
Length	95
Max. P	0.850397

overview

Window 4

Location	13,636,024 – 13,636,119
Length	95
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	84.24
Mean single sequence MFE	-51.15
Consensus MFE	-39.10
Energy contribution	-38.97
Covariance contribution	-0.13
Combinations/Pair	1.26
Mean z-score	-2.52
Structure conservation index	0.76
SVM decision value	0.61
SVM RNA-class probability	0.800259
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13636024 95 + 22407834
CG---------GG---UUCCAUUGGUGGUGGUGUCCAGGCGGCCAUUAGCAGCGGCGGUGUGGUGGCUCGGGCCCAGCUGCCGCUGCCAUUGCCGCCGCCAAAUGGA
..---------..---.(((((((((((......)).((((((.....(((((((((((...(.(((....)))).)))))))))))....))))))))).)))))) ( -52.70)
>DroVir_CAF1 1483 95 + 1
UG---------GG---UGCCAUUGGUGGUGGUGUGCAGGCGGCCAUCAGCAGCGGCGGCGUUGUGGCGCGUGCUCAGCUGCCGCUGCCGUUGCCGCCGGCAAAUGCA
((---------.(---..((((.....))))..).))((((((...(.(((((((((((.....(((....)))..))))))))))).)..)))))).((....)). ( -50.40)
>DroEre_CAF1 1491 95 + 1
CG---------GG---UUCCAUUGGUGGUGGUGUUCAGGCGGCCAUUAGCAGCGGCGGAGUGGUGGCCAGGGCCCAGCUGCCGCUGCCAUUGCCGCCGCCAAAUGGA
..---------..---.(((((((((((((((.....((...))....((((((((((....(.(((....))))..))))))))))....))))))))).)))))) ( -50.60)
>DroWil_CAF1 1490 104 + 1
CGCCAGUUACAGG---UUCACUGGGUGGUGGUGUCCAGGCGGCCAUUAGCAGCGGCGGCGUUGUGGCUCGCGCCCAGCUGCCGUUGCCAUUGCCGCCGGCUAAUGCA
.(((.......((---.(((((....)))))...)).((((((.....(((((((((((..((.(((....))))))))))))))))....)))))))))....... ( -52.00)
>DroMoj_CAF1 2013 98 + 1
UG---------GGUGGUGCUAUGGGUGGUGGUGUGCAGGCGGCCAUUAGCAGCGGUGGUGUGGUGGCGCGUGCGCAGCUGCCACUGCCAUUGCUGCCGGCAACUGCA
..---------.(..(((((...((((((.((......)).)))))).(((((((((((((((..((((....)).))..)))).))))))))))).))).))..). ( -51.40)
>DroAna_CAF1 1495 95 + 1
CG---------GG---UUCCAUUGGUGGUGGUGUGCAGGCGGCCAUUAGCAGCGGCGGUGUGGUGGCUCGGGCCCAGCUGCCGCUGCCUCUGCCGCCGCCGAAUGCA
((---------((---(.((((.....))))...)).((((((.....(((((((((((...(.(((....)))).)))))))))))....)))))).)))...... ( -49.80)
>consensus
CG_________GG___UUCCAUUGGUGGUGGUGUGCAGGCGGCCAUUAGCAGCGGCGGUGUGGUGGCUCGGGCCCAGCUGCCGCUGCCAUUGCCGCCGCCAAAUGCA
..................((((.....))))......((((((.....(((((((((((...(.(((....)))).)))))))))))....)))))).((....)). (-39.10 = -38.97 +  -0.13)

alignment

secondary structure

dotplot

Window 5

Location	13,636,024 – 13,636,119
Length	95
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	84.24
Mean single sequence MFE	-42.72
Consensus MFE	-33.31
Energy contribution	-33.95
Covariance contribution	0.64
Combinations/Pair	1.10
Mean z-score	-2.63
Structure conservation index	0.78
SVM decision value	0.79
SVM RNA-class probability	0.850397
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13636024 95 - 22407834
UCCAUUUGGCGGCGGCAAUGGCAGCGGCAGCUGGGCCCGAGCCACCACACCGCCGCUGCUAAUGGCCGCCUGGACACCACCACCAAUGGAA---CC---------CG
((((((.((.((((((..((((((((((.....(((....)))........))))))))))...))))))(((......))))))))))).---..---------.. ( -46.72)
>DroVir_CAF1 1483 95 - 1
UGCAUUUGCCGGCGGCAACGGCAGCGGCAGCUGAGCACGCGCCACAACGCCGCCGCUGCUGAUGGCCGCCUGCACACCACCACCAAUGGCA---CC---------CA
......(((.((((((..((((((((((.((((.((....))))....)).))))))))))...)))))).))).....(((....)))..---..---------.. ( -44.10)
>DroEre_CAF1 1491 95 - 1
UCCAUUUGGCGGCGGCAAUGGCAGCGGCAGCUGGGCCCUGGCCACCACUCCGCCGCUGCUAAUGGCCGCCUGAACACCACCACCAAUGGAA---CC---------CG
(((((((((.((((((..((((((((((((...(((....)))....))..))))))))))...))))))((.....)))))..)))))).---..---------.. ( -45.90)
>DroWil_CAF1 1490 104 - 1
UGCAUUAGCCGGCGGCAAUGGCAACGGCAGCUGGGCGCGAGCCACAACGCCGCCGCUGCUAAUGGCCGCCUGGACACCACCACCCAGUGAA---CCUGUAACUGGCG
.......(((((((((..(((((.((((.(((((((....))).))..)).)))).)))))...)))))).)).)........(((((...---......))))).. ( -46.40)
>DroMoj_CAF1 2013 98 - 1
UGCAGUUGCCGGCAGCAAUGGCAGUGGCAGCUGCGCACGCGCCACCACACCACCGCUGCUAAUGGCCGCCUGCACACCACCACCCAUAGCACCACC---------CA
(((((..(((((((((..(((..((((..((.((....))))..)))).)))..))))))...)))...)))))......................---------.. ( -33.10)
>DroAna_CAF1 1495 95 - 1
UGCAUUCGGCGGCGGCAGAGGCAGCGGCAGCUGGGCCCGAGCCACCACACCGCCGCUGCUAAUGGCCGCCUGCACACCACCACCAAUGGAA---CC---------CG
((((...((((((..((..(((((((((.....(((....)))........)))))))))..)))))))))))).....(((....)))..---..---------.. ( -40.12)
>consensus
UGCAUUUGCCGGCGGCAAUGGCAGCGGCAGCUGGGCCCGAGCCACCACACCGCCGCUGCUAAUGGCCGCCUGCACACCACCACCAAUGGAA___CC_________CG
..........((((((..((((((((((.(...(((....)))......).))))))))))...))))))..................................... (-33.31 = -33.95 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:59 2006