Locus 7765

Sequence ID X_DroMel_CAF1
Location 19,314,725 – 19,314,834
Length 109
Max. P 0.886402
window12744 window12745

overview

Window 4

Location 19,314,725 – 19,314,834
Length 109
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 88.57
Mean single sequence MFE -41.88
Consensus MFE -35.46
Energy contribution -35.52
Covariance contribution 0.06
Combinations/Pair 1.17
Mean z-score -1.46
Structure conservation index 0.85
SVM decision value 0.17
SVM RNA-class probability 0.615319
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19314725 109 + 22224390
UGCUUUUUAGCCGAAGUCAGGU-GGAGAGUGCCUAUUUUUGGCAGAAGCAAUCCGGAGGCGAUGCCUCCGCUGCUCGAGAUGUGUGGCUUCAGCGGGCGAUUGCACAGCU
.(((.....(((((((..((((-.......))))..)))))))....(((((((((((((...)))))))(((((.(((........))).)))))..))))))..))). ( -43.90)
>DroSec_CAF1 4770 109 + 1
UGCUUUUUAGCUGAAGUCAGGU-GUAGAGUGCCUAUUUUUGGCAGAAGCAAUCCGGAGGCGAUUCCUCCGCUGCUCGAGAUGUGCGGCUUCAGCGGGCAAUUGCACAGCU
.(((.....(((((((((((((-.......))))(((((.(((((........((((((.....))))))))))).)))))....)))))))))..((....))..))). ( -39.20)
>DroEre_CAF1 6764 107 + 1
UGCUUUUUCGCCAAAGUCAGGU-GAAGAGUGCCUAUUUUUGGCAGAAGCAAACCGGAGGCAAUGCCUCCGCUGCUCGAGAUGCGCGACUUCAG-GGGCCAUCGCA-GGCC
(((((((..(((((((..((((-.......))))..))))))))))))))...(((((((...)))))))((((....((((.((..(....)-..)))))))))-)... ( -42.50)
>DroYak_CAF1 6299 109 + 1
UGCUUUUUCGCCCAAGUCAGGUUGGAGAGUGCCUAUUUUUGGCAGAAGCAAUCCGGAGGCGAUGCCUCCGCUGCUCGAGAUGUGCGACAACGGCGGGCCAUCGCG-GGCC
(((((((..(((.(((..((((........))))..))).))))))))))...(((((((...)))))))..(((((.((((.((..(......).)))))).))-))). ( -41.90)
>consensus
UGCUUUUUAGCCGAAGUCAGGU_GGAGAGUGCCUAUUUUUGGCAGAAGCAAUCCGGAGGCGAUGCCUCCGCUGCUCGAGAUGUGCGACUUCAGCGGGCCAUCGCA_AGCC
(((((((..(((((((..((((........))))..))))))))))))))....((((((...))))))((((..(((...((.((.......)).))..)))..)))). (-35.46 = -35.52 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 19,314,725 – 19,314,834
Length 109
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 88.57
Mean single sequence MFE -37.75
Consensus MFE -31.94
Energy contribution -32.75
Covariance contribution 0.81
Combinations/Pair 1.13
Mean z-score -1.90
Structure conservation index 0.85
SVM decision value 0.94
SVM RNA-class probability 0.886402
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19314725 109 - 22224390
AGCUGUGCAAUCGCCCGCUGAAGCCACACAUCUCGAGCAGCGGAGGCAUCGCCUCCGGAUUGCUUCUGCCAAAAAUAGGCACUCUCC-ACCUGACUUCGGCUAAAAAGCA
.((((.((....)).)(((((((.((........(((((((((((((...)))))))..)))))).((((.......))))......-...)).))))))).....))). ( -36.60)
>DroSec_CAF1 4770 109 - 1
AGCUGUGCAAUUGCCCGCUGAAGCCGCACAUCUCGAGCAGCGGAGGAAUCGCCUCCGGAUUGCUUCUGCCAAAAAUAGGCACUCUAC-ACCUGACUUCAGCUAAAAAGCA
.((((.((....)).)(((((((.(.........((((((((((((.....))))))..)))))).((((.......))))......-....).))))))).....))). ( -35.10)
>DroEre_CAF1 6764 107 - 1
GGCC-UGCGAUGGCCC-CUGAAGUCGCGCAUCUCGAGCAGCGGAGGCAUUGCCUCCGGUUUGCUUCUGCCAAAAAUAGGCACUCUUC-ACCUGACUUUGGCGAAAAAGCA
((((-......))))(-(..(((((.........(((((((((((((...)))))))..)))))).((((.......))))......-....)))))..).)........ ( -38.30)
>DroYak_CAF1 6299 109 - 1
GGCC-CGCGAUGGCCCGCCGUUGUCGCACAUCUCGAGCAGCGGAGGCAUCGCCUCCGGAUUGCUUCUGCCAAAAAUAGGCACUCUCCAACCUGACUUGGGCGAAAAAGCA
.(((-(((((..((.....))..)))).......((((((.((((((...))))))(((..(....((((.......)))))..)))...))).)))))))......... ( -41.00)
>consensus
AGCC_UGCAAUGGCCCGCUGAAGCCGCACAUCUCGAGCAGCGGAGGCAUCGCCUCCGGAUUGCUUCUGCCAAAAAUAGGCACUCUCC_ACCUGACUUCGGCGAAAAAGCA
.((...((....))..((((((((((........((((((((((((.....))))))..)))))).((((.......))))..........))))))))))......)). (-31.94 = -32.75 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:04 2006