Locus 1098

Sequence ID X_DroMel_CAF1
Location 3,223,848 – 3,223,967
Length 119
Max. P 0.917153
window1778 window1779

overview

Window 8

Location 3,223,848 – 3,223,967
Length 119
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 88.29
Mean single sequence MFE -39.47
Consensus MFE -30.74
Energy contribution -30.30
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -2.78
Structure conservation index 0.78
SVM decision value 0.87
SVM RNA-class probability 0.871883
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3223848 119 + 22224390
UGUGCCCUGUGCCACUUGUGUGUGCACCACUUUUCGGGCACUUUUCCCCAGAGAUCACAACAAGUGCACGAGUGUCCGUCCAGGGAAUGGGGAA-AUUUGGUAUUUUCCCUAACGAAUUC
....(((((..((((((((((((((.((.......)))))).((((....))))...........)))))))))...)..)))))..(((((((-(........))))))))........ ( -39.80)
>DroSec_CAF1 32771 110 + 1
U--GCCCUGUGCCACUUGUGUGUGCACCACUUUUCGGGCACUUUUCCCCGGAGAUCAC---AAGUGCACGACUG----UCCAGGGAAUGGGGAA-UUUUAAAUUUUUCCCUACCGAAUUC
.--.((((((((.(((((((.((((.((.......)))))).((((....)))).)))---))))))))(....----..)))))..(((((((-..........)))))))........ ( -36.50)
>DroYak_CAF1 38162 111 + 1
U--GCCCUGUGCCACUUGUGUGUGCACCACUUUUUGGGCACUUUUCCCCGGAGAUCAC---AAGUGCACGGCUG----UCCAGGGAAUGGGGAAAAUUUACUUUUUUCCCUACCGAAUUC
.--.((((((((.(((((((.((((.(((.....))))))).((((....)))).)))---))))))))((...----.))))))..(((((((((.......)))))))))........ ( -42.10)
>consensus
U__GCCCUGUGCCACUUGUGUGUGCACCACUUUUCGGGCACUUUUCCCCGGAGAUCAC___AAGUGCACGACUG____UCCAGGGAAUGGGGAA_AUUUAAUUUUUUCCCUACCGAAUUC
....(((((((((((....))).))))......(((.(((((((((....))))........))))).)))..........))))..(((((((...........)))))))........ (-30.74 = -30.30 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,223,848 – 3,223,967
Length 119
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 88.29
Mean single sequence MFE -39.90
Consensus MFE -32.65
Energy contribution -32.43
Covariance contribution -0.22
Combinations/Pair 1.04
Mean z-score -2.81
Structure conservation index 0.82
SVM decision value 1.11
SVM RNA-class probability 0.917153
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3223848 119 - 22224390
GAAUUCGUUAGGGAAAAUACCAAAU-UUCCCCAUUCCCUGGACGGACACUCGUGCACUUGUUGUGAUCUCUGGGGAAAAGUGCCCGAAAAGUGGUGCACACACAAGUGGCACAGGGCACA
..........((((((........)-)))))..(((((..((.((.(((....((....)).))).))))..)))))..((((((........((((.(((....))))))).)))))). ( -43.10)
>DroSec_CAF1 32771 110 - 1
GAAUUCGGUAGGGAAAAAUUUAAAA-UUCCCCAUUCCCUGGA----CAGUCGUGCACUU---GUGAUCUCCGGGGAAAAGUGCCCGAAAAGUGGUGCACACACAAGUGGCACAGGGC--A
..........(((((..........-)))))..(((((((((----..((((.......---.)))).)))))))))...(((((........((((.(((....))))))).))))--) ( -36.70)
>DroYak_CAF1 38162 111 - 1
GAAUUCGGUAGGGAAAAAAGUAAAUUUUCCCCAUUCCCUGGA----CAGCCGUGCACUU---GUGAUCUCCGGGGAAAAGUGCCCAAAAAGUGGUGCACACACAAGUGGCACAGGGC--A
..........(((((((.......)))))))....((((((.----...))((((((((---(((.(((....)))...(((((((.....))).)))).))))))).)))))))).--. ( -39.90)
>consensus
GAAUUCGGUAGGGAAAAAACUAAAU_UUCCCCAUUCCCUGGA____CAGUCGUGCACUU___GUGAUCUCCGGGGAAAAGUGCCCGAAAAGUGGUGCACACACAAGUGGCACAGGGC__A
..........(((((...........)))))..(((((((((............(((.....)))...)))))))))....((((........((((.(((....))))))).))))... (-32.65 = -32.43 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:29 2006