Locus 2007

Sequence ID 2R_DroMel_CAF1
Location 7,551,420 – 7,551,574
Length 154
Max. P 0.680614
window3316 window3317

overview

Window 6

Location 7,551,420 – 7,551,534
Length 114
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 72.81
Mean single sequence MFE -43.85
Consensus MFE -20.15
Energy contribution -19.60
Covariance contribution -0.55
Combinations/Pair 1.46
Mean z-score -1.79
Structure conservation index 0.46
SVM decision value 0.30
SVM RNA-class probability 0.680614
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7551420 114 - 20766785
AGCUGCCACUAGAAGGCCACACAGCAGGGGACUCAGCCUGGAGCCCAGCUGGUGCCUGGUGGCCCACACCAAGGUCUCGUUCCACCUACUCUGCACCUGGUGGCUCAGCACCUG
.(((((((((((.((((.((.((((..(((.(((......)))))).))))))))))(((((..(..((....))...)..)))))..........))))))))..)))..... ( -47.70)
>DroVir_CAF1 9595 114 - 1
AACGGACACAAUAAGACCCCACAGCAGUGGGCUCAGCUUGGAGCGCAUUUGGUGCUGCUCCGACCAGUCCAAGGCAGCGCUCAGCUGUGCCUGCACAUAGCUGCUCAGAUGCUG
...((((.......((.(((((....))))).)).(.(((((((((((...)))).))))))).).))))....(((((((((((((((......))))))))...)).))))) ( -47.40)
>DroPse_CAF1 11545 114 - 1
UGUGGCCACGAUGAGGCCACACAACAGUGGGCUCAACUUGGAGACCAGUUGGUGCCUCUCAGACCAUCCCAAGGCCUCGCUCCAUUGACCCUGUACAAAGCCGGUCAACUGUUG
(((((((.......)))))))(((((((((((((((((.(....).)))))).))))...............((((..(((...(((........)))))).)))).))))))) ( -41.50)
>DroEre_CAF1 12665 114 - 1
UGCGGCCACGAGAAGGCCACACAGGAGGGGACUCAGCCUGGAGCCCAGCUGGUGCCUGUUGGCCCACACCAAGGUCUCGUUCCACCGACUCUGCACCUGGUGGCUCAACUCCUG
((.((((.......)))).))(((((((((.(((......))))))((((((.(((....))))))(((((.((((..(((.....)))...).)))))))))))...)))))) ( -46.60)
>DroAna_CAF1 9238 114 - 1
AAUGGCCACUAAGAAGCCACACAGAAAUGGACUCAGCUUGGAGGCCAGCUGGUGCCGUGUUGACCAUUCCAGGGAAGCGUUCCAAUGGCUCUGCACCUGUUGGUGCCACUCCUG
..(((((.(((((.(((((........))).))...))))).)))))..(((..((((((.(((((((...((((....))))))))).)).)))).....))..)))...... ( -38.40)
>DroPer_CAF1 11509 114 - 1
UGUGGCCACGAUGAGGCCACACAACAGUGGGCUCAACUUGGAGACCAGUUGGUGCCUCUCAGACCAUCCCAAGGCCUCGCUCCAUUGACCCUGUACAAAGCCGGUCAACUGUUG
(((((((.......)))))))(((((((((((((((((.(....).)))))).))))...............((((..(((...(((........)))))).)))).))))))) ( -41.50)
>consensus
AGCGGCCACGAUAAGGCCACACAGCAGUGGACUCAGCUUGGAGCCCAGCUGGUGCCUCUCAGACCAUACCAAGGCCUCGCUCCACUGACCCUGCACAUAGCGGCUCAACUCCUG
...((((.......))))...((((((.((((.((((.((.....)))))))).))......................(..(((((............)))))..)..)))))) (-20.15 = -19.60 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,551,454 – 7,551,574
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.50
Mean single sequence MFE -44.28
Consensus MFE -25.85
Energy contribution -26.77
Covariance contribution 0.92
Combinations/Pair 1.20
Mean z-score -1.52
Structure conservation index 0.58
SVM decision value -0.04
SVM RNA-class probability 0.514973
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7551454 120 - 20766785
CGGGCACCGCGCUGUCCAAGUACACGAUUCCGUACGCGAAAGCUGCCACUAGAAGGCCACACAGCAGGGGACUCAGCCUGGAGCCCAGCUGGUGCCUGGUGGCCCACACCAAGGUCUCGU
(((((((((((((((....((((........))))((....)).(((.......)))...)))))..(((.(((......)))))).)).))))))))(.((((........)))).).. ( -49.30)
>DroVir_CAF1 9629 120 - 1
CUGGCACAGCGCUGUCCAAGUAAACAAUGGCAUAGCAAAAAACGGACACAAUAAGACCCCACAGCAGUGGGCUCAGCUUGGAGCGCAUUUGGUGCUGCUCCGACCAGUCCAAGGCAGCGC
........((((((((...((........))............((((.......((.(((((....))))).)).(.(((((((((((...)))).))))))).).))))..)))))))) ( -44.60)
>DroPse_CAF1 11579 120 - 1
CUGGCACUGCGCUGUCCAAGUAAACCAUUCCGUAGGCGAAUGUGGCCACGAUGAGGCCACACAACAGUGGGCUCAACUUGGAGACCAGUUGGUGCCUCUCAGACCAUCCCAAGGCCUCGC
..(((((((.(((((((((((.........(((.(((.......)))))).((((.((((......)))).)))))))))))...)))))))))))....((.((.......)).))... ( -42.80)
>DroEre_CAF1 12699 120 - 1
CGGGCACCGCGCUGUCCAAGUACACGAUUCCGUAUGCGAAUGCGGCCACGAGAAGGCCACACAGGAGGGGACUCAGCCUGGAGCCCAGCUGGUGCCUGUUGGCCCACACCAAGGUCUCGU
(((((((((.((((((((.(((.(((....))).)))....((((((.......))))......(((....))).)).))))...)))))))))))))..((((........)))).... ( -48.80)
>DroAna_CAF1 9272 120 - 1
CCGGAACCACGCUGUCCAAGUAAACAAUUCCGUAGGCAAAAAUGGCCACUAAGAAGCCACACAGAAAUGGACUCAGCUUGGAGGCCAGCUGGUGCCGUGUUGACCAUUCCAGGGAAGCGU
.(((.((((.(((((((((((..........((.(((.......)))))...((..(((........)))..)).)))))))...)))))))).))).(((..((......))..))).. ( -37.40)
>DroPer_CAF1 11543 120 - 1
CUGGCACUGCGCUGUCCAAGUAAACCAUUCCGUAGGCGAAUGUGGCCACGAUGAGGCCACACAACAGUGGGCUCAACUUGGAGACCAGUUGGUGCCUCUCAGACCAUCCCAAGGCCUCGC
..(((((((.(((((((((((.........(((.(((.......)))))).((((.((((......)))).)))))))))))...)))))))))))....((.((.......)).))... ( -42.80)
>consensus
CUGGCACCGCGCUGUCCAAGUAAACAAUUCCGUAGGCGAAAGCGGCCACGAUAAGGCCACACAGCAGUGGACUCAGCUUGGAGCCCAGCUGGUGCCUCUCAGACCAUACCAAGGCCUCGC
..(((((((.(((((((((((......................((((.......)))).(((....)))......)))))))...)))))))))))........................ (-25.85 = -26.77 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:18:38 2006