Locus 7300

Sequence ID X_DroMel_CAF1
Location 18,188,592 – 18,188,699
Length 107
Max. P 0.996551
window11955 window11956

overview

Window 5

Location 18,188,592 – 18,188,699
Length 107
Sequences 5
Columns 107
Reading direction forward
Mean pairwise identity 90.23
Mean single sequence MFE -30.74
Consensus MFE -25.43
Energy contribution -25.83
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -2.62
Structure conservation index 0.83
SVM decision value 2.71
SVM RNA-class probability 0.996551
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18188592 107 + 22224390
AUUCAUUUGAUAGCUGCAGGUGGCAACGGCCAACGGUAAAAAUAAUAACCAGCAUUAAGCCGUCAAGUGGGUGGGCGACCAACCACCACAGCCACCCAUGCCACCCA
...............(((((((((.(((((....(((..........)))........)))))...((((.(((....)))....)))).))))))..)))...... ( -32.00)
>DroSec_CAF1 50957 91 + 1
AUUCAUUUGAUAGCUGCAGGUGGCAACGGCCAACGGUAAAAAUAAUAACCAGCAUUAAGCCGUCAAGUGGGUGGG----------------CCAACCAUGCCCGCCA
...(((((((..(((((.(.((((....)))).)(((..........))).))....)))..)))))))((((((----------------(.......))))))). ( -34.20)
>DroSim_CAF1 49396 91 + 1
AUUCAUUUGAUAGCUGCAGGUGGCAACGGCCAACGGUAAAAAUAAUAACCAGCAUUAAGCCGUCAAGUGGGUGGG----------------CCAGCCAUGCCACCCA
....((((((..(((((.(.((((....)))).)(((..........))).))....)))..))))))((((((.----------------.........)))))). ( -28.20)
>DroEre_CAF1 44545 89 + 1
AUUCAUUUGAUAGCUGCAGGUGGCAACGGCCAACGGUGAAAAUAAUAACCAGCAUUAAGCCGUCAAGUGGGUGGG----------------CC--CCAUGCCACCCA
....((((((..(((((.(.((((....)))).)(((..........))).))....)))..))))))((((((.----------------..--.....)))))). ( -30.00)
>DroYak_CAF1 44829 89 + 1
AUUCAUUUGAUAGCUGCAGGUGGCAACGGCCAACGGUAAAAAUAAUAACCAGCAUUAAGCCGUCAAGUGGGUGGG----------------CU--CCAUGCCACCCA
....((((((..(((((.(.((((....)))).)(((..........))).))....)))..))))))((((((.----------------(.--....))))))). ( -29.30)
>consensus
AUUCAUUUGAUAGCUGCAGGUGGCAACGGCCAACGGUAAAAAUAAUAACCAGCAUUAAGCCGUCAAGUGGGUGGG________________CCA_CCAUGCCACCCA
....((((((..(((((.(.((((....)))).)(((..........))).))....)))..))))))((((((..........................)))))). (-25.43 = -25.83 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 18,188,592 – 18,188,699
Length 107
Sequences 5
Columns 107
Reading direction reverse
Mean pairwise identity 90.23
Mean single sequence MFE -32.44
Consensus MFE -25.51
Energy contribution -26.51
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.20
Structure conservation index 0.79
SVM decision value 1.41
SVM RNA-class probability 0.951567
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18188592 107 - 22224390
UGGGUGGCAUGGGUGGCUGUGGUGGUUGGUCGCCCACCCACUUGACGGCUUAAUGCUGGUUAUUAUUUUUACCGUUGGCCGUUGCCACCUGCAGCUAUCAAAUGAAU
..((((((..(((((((...(((((.(((....))).))))).(((((((....((.(((..........))))).))))))))))))))...))))))........ ( -43.00)
>DroSec_CAF1 50957 91 - 1
UGGCGGGCAUGGUUGG----------------CCCACCCACUUGACGGCUUAAUGCUGGUUAUUAUUUUUACCGUUGGCCGUUGCCACCUGCAGCUAUCAAAUGAAU
((((..(((.(((.((----------------(..........(((((((....((.(((..........))))).)))))))))))))))).)))).......... ( -27.40)
>DroSim_CAF1 49396 91 - 1
UGGGUGGCAUGGCUGG----------------CCCACCCACUUGACGGCUUAAUGCUGGUUAUUAUUUUUACCGUUGGCCGUUGCCACCUGCAGCUAUCAAAUGAAU
.((((((((((((..(----------------(.............(((.....)))(((..........)))))..)))).))))))))................. ( -31.00)
>DroEre_CAF1 44545 89 - 1
UGGGUGGCAUGG--GG----------------CCCACCCACUUGACGGCUUAAUGCUGGUUAUUAUUUUCACCGUUGGCCGUUGCCACCUGCAGCUAUCAAAUGAAU
.(((((((.(((--(.----------------....))))...(((((((.((((.(((.........))).))))))))))))))))))................. ( -32.90)
>DroYak_CAF1 44829 89 - 1
UGGGUGGCAUGG--AG----------------CCCACCCACUUGACGGCUUAAUGCUGGUUAUUAUUUUUACCGUUGGCCGUUGCCACCUGCAGCUAUCAAAUGAAU
.(((((((.(((--..----------------.....)))...(((((((....((.(((..........))))).))))))))))))))................. ( -27.90)
>consensus
UGGGUGGCAUGG_UGG________________CCCACCCACUUGACGGCUUAAUGCUGGUUAUUAUUUUUACCGUUGGCCGUUGCCACCUGCAGCUAUCAAAUGAAU
.(((((((.(((.(((.................))).)))...(((((((....((.(((..........))))).))))))))))))))................. (-25.51 = -26.51 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:26 2006