Locus 6932

Sequence ID 2L_DroMel_CAF1
Location 19,300,337 – 19,300,490
Length 153
Max. P 0.966831
window11048 window11049 window11050

overview

Window 8

Location 19,300,337 – 19,300,450
Length 113
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 76.58
Mean single sequence MFE -29.92
Consensus MFE -20.53
Energy contribution -20.20
Covariance contribution -0.33
Combinations/Pair 1.45
Mean z-score -1.22
Structure conservation index 0.69
SVM decision value 0.40
SVM RNA-class probability 0.722785
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19300337 113 + 22407834
ACCUCCCUUAAUUUGUAGGGUAACAUUUAUUCGUGAAUUCGAUUUGCUUGCCUUUAAUGUGUCAUCGGAGUUGGUGGGCGGAGAUAAAUGCCACCUGCCGCCCACAACUCACU
................(((((((((.....(((......)))..)).))))))).............((((((.(((((((((...........)).)))))))))))))... ( -31.10)
>DroSec_CAF1 41344 113 + 1
ACCUUCCUUAAUUUGUAGGGUAACAUUUAUUCGUGAUUUCGAUUUGCUUGCCUUUAAUGUGUCAUUGGAGUUGCUGGGCGGAGAUAAAUGCCACCUGCCGCCCACAACUCACU
................(((((((((.....(((......)))..)).))))))).............((((((.(((((((((...........)).)))))))))))))... ( -31.10)
>DroSim_CAF1 48097 111 + 1
ACCUCCCUUACUUUGUAGGGUAACAUUUAUUCGUGAUUUCGAUUUGCUUGCCUUUAAUGUGUCAU--GAGUCGGUGGGCGGAGAUAAAUGCCACCUGCCGCCCACAACUCACU
........(((.(((.(((((((((.....(((......)))..)).)))))))))).)))...(--((((..((((((((((...........)).)))))))).))))).. ( -32.20)
>DroEre_CAF1 46781 112 + 1
ACCUCUCUUGAUAUACAGGGUAUUGUUUAUUCGCGGUUUCGAUUUGCUUACG-CUAUUGUGUCACUGGAGUUGGUGGGCGGAGAUAAAUGCCACCUGCCACCCACAACUCACU
........(((((((.((.(((..((....(((......)))...)).))).-))..)))))))...((((((.((((.((((...........)).)).))))))))))... ( -28.60)
>DroYak_CAF1 47372 113 + 1
ACUUUCCCUUAUAAAUAGGGUAUUUUUUAUUCGUGGUUUCGAUUUGCUUACCUUUAUUGUGUCAUUGGAGUUGGUGGGCGGAGAUAAAUGCCUCCUGCCACCCACAACUCACU
.........(((((..((((((........(((......)))......))))))..)))))......((((((...(((((((........)))).))).....))))))... ( -27.54)
>DroAna_CAF1 70743 111 + 1
UCAUUCACUCGCCUCUAGGGUAUAUUUUAAUCCAAAUUUAGCUUCCUGCUCCUUUUUUGUAUUGCCGG-GCCAGUGGGUGGAGCAGGAAACCACCUGCCGUCCCUGGUUC-UU
(((((((((.((((...((((........))))......(((.....)))................))-)).))))))))).(((((......)))))............-.. ( -29.00)
>consensus
ACCUCCCUUAAUUUGUAGGGUAACAUUUAUUCGUGAUUUCGAUUUGCUUGCCUUUAAUGUGUCAUUGGAGUUGGUGGGCGGAGAUAAAUGCCACCUGCCGCCCACAACUCACU
.....(((((.....)))))...............................................((((((.(((((((((...........)).)))))))))))))... (-20.53 = -20.20 +  -0.33)

alignment

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secondary structure

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dotplot

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Window 9

Location 19,300,337 – 19,300,450
Length 113
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 76.58
Mean single sequence MFE -31.68
Consensus MFE -21.91
Energy contribution -21.88
Covariance contribution -0.02
Combinations/Pair 1.36
Mean z-score -1.99
Structure conservation index 0.69
SVM decision value 1.60
SVM RNA-class probability 0.966831
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19300337 113 - 22407834
AGUGAGUUGUGGGCGGCAGGUGGCAUUUAUCUCCGCCCACCAACUCCGAUGACACAUUAAAGGCAAGCAAAUCGAAUUCACGAAUAAAUGUUACCCUACAAAUUAAGGGAGGU
.(((((((((((((((.(((((.....)))))))))))))......((((....................)))))))))))............((((........)))).... ( -33.95)
>DroSec_CAF1 41344 113 - 1
AGUGAGUUGUGGGCGGCAGGUGGCAUUUAUCUCCGCCCAGCAACUCCAAUGACACAUUAAAGGCAAGCAAAUCGAAAUCACGAAUAAAUGUUACCCUACAAAUUAAGGAAGGU
.(.(((((((((((((.(((((.....)))))))))))).))))))).............(((..((((..(((......))).....))))..)))................ ( -30.30)
>DroSim_CAF1 48097 111 - 1
AGUGAGUUGUGGGCGGCAGGUGGCAUUUAUCUCCGCCCACCGACUC--AUGACACAUUAAAGGCAAGCAAAUCGAAAUCACGAAUAAAUGUUACCCUACAAAGUAAGGGAGGU
.(((((((((((((((.(((((.....)))))))))))).))))))--))...(((((....(....)...(((......)))...)))))..((((........)))).... ( -35.50)
>DroEre_CAF1 46781 112 - 1
AGUGAGUUGUGGGUGGCAGGUGGCAUUUAUCUCCGCCCACCAACUCCAGUGACACAAUAG-CGUAAGCAAAUCGAAACCGCGAAUAAACAAUACCCUGUAUAUCAAGAGAGGU
.(.(((((((((((((.(((((.....)))))))))))).)))))))............(-(....))...(((......))).........(((((.(......).)).))) ( -31.90)
>DroYak_CAF1 47372 113 - 1
AGUGAGUUGUGGGUGGCAGGAGGCAUUUAUCUCCGCCCACCAACUCCAAUGACACAAUAAAGGUAAGCAAAUCGAAACCACGAAUAAAAAAUACCCUAUUUAUAAGGGAAAGU
.(.(((((((((((((..(((........)))))))))).)))))))..............(((...(.....)..)))..............((((.......))))..... ( -28.40)
>DroAna_CAF1 70743 111 - 1
AA-GAACCAGGGACGGCAGGUGGUUUCCUGCUCCACCCACUGGC-CCGGCAAUACAAAAAAGGAGCAGGAAGCUAAAUUUGGAUUAAAAUAUACCCUAGAGGCGAGUGAAUGA
..-.....((((........((((((((((((((.((....)).-..(......)......)))))))))))))).((((......))))...))))................ ( -30.00)
>consensus
AGUGAGUUGUGGGCGGCAGGUGGCAUUUAUCUCCGCCCACCAACUCCAAUGACACAAUAAAGGCAAGCAAAUCGAAAUCACGAAUAAAUGAUACCCUACAAAUUAAGGAAGGU
...(((((((((((((.((((((...))))))))))))).)))))).........................(((......)))...........(((........)))..... (-21.91 = -21.88 +  -0.02)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,300,377 – 19,300,490
Length 113
Sequences 6
Columns 113
Reading direction reverse
Mean pairwise identity 86.14
Mean single sequence MFE -33.33
Consensus MFE -27.55
Energy contribution -27.58
Covariance contribution 0.03
Combinations/Pair 1.29
Mean z-score -2.54
Structure conservation index 0.83
SVM decision value 0.98
SVM RNA-class probability 0.894184
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19300377 113 - 22407834
AUAAAAAAGGCAUUUGUAAGACAUGAAAGGUACUCAGUCAAGUGAGUUGUGGGCGGCAGGUGGCAUUUAUCUCCGCCCACCAACUCCGAUGACACAUUAAAGGCAAGCAAAUC
.........((..((((......(((.......)))((((.(.(((((((((((((.(((((.....)))))))))))).)))))))..)))).........))))))..... ( -34.20)
>DroSec_CAF1 41384 113 - 1
AUAAAAAAGGCAUUUGUAAGACAUGAAAGGUACUCAGUCAAGUGAGUUGUGGGCGGCAGGUGGCAUUUAUCUCCGCCCAGCAACUCCAAUGACACAUUAAAGGCAAGCAAAUC
.........((..((((......(((.......)))((((...(((((((((((((.(((((.....)))))))))))).))))))...)))).........))))))..... ( -33.80)
>DroSim_CAF1 48137 111 - 1
AUAAAAAAGGCAUUUGUAAGACAUGAAAGGUACUCAGUCAAGUGAGUUGUGGGCGGCAGGUGGCAUUUAUCUCCGCCCACCGACUC--AUGACACAUUAAAGGCAAGCAAAUC
.........((..((((..(((.(((.......))))))..(((((((((((((((.(((((.....)))))))))))).))))))--))............))))))..... ( -35.80)
>DroEre_CAF1 46821 112 - 1
AUAAAAAGGGCAUUUGUAAGACAUGAAAGGUACUCAGUCAAGUGAGUUGUGGGUGGCAGGUGGCAUUUAUCUCCGCCCACCAACUCCAGUGACACAAUAG-CGUAAGCAAAUC
.......(((.((((............)))).))).((((...(((((((((((((.(((((.....)))))))))))).))))))...))))......(-(....))..... ( -35.50)
>DroYak_CAF1 47412 113 - 1
AUAAAAAAGGCAUUUGUAAGACAUGAAAGGUACUCAGUCAAGUGAGUUGUGGGUGGCAGGAGGCAUUUAUCUCCGCCCACCAACUCCAAUGACACAAUAAAGGUAAGCAAAUC
...........((((((...((.(((.......)))((((...(((((((((((((..(((........)))))))))).))))))...)))).........))..)))))). ( -30.40)
>DroAna_CAF1 70783 111 - 1
AUAAAAAAGGCAUUUGUAAGACAUGAAAGGCACUCAGUCAAA-GAACCAGGGACGGCAGGUGGUUUCCUGCUCCACCCACUGGC-CCGGCAAUACAAAAAAGGAGCAGGAAGC
..........(((((((..(((.(((.......))))))...-...(....)...)))))))((((((((((((.((....)).-..(......)......)))))))))))) ( -30.30)
>consensus
AUAAAAAAGGCAUUUGUAAGACAUGAAAGGUACUCAGUCAAGUGAGUUGUGGGCGGCAGGUGGCAUUUAUCUCCGCCCACCAACUCCAAUGACACAAUAAAGGCAAGCAAAUC
...........((((((..(((.(((.......))))))....(((((((((((((.((((((...))))))))))))).))))))....................)))))). (-27.55 = -27.58 +   0.03)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:23:12 2006