Locus 3350

Sequence ID	3R_DroMel_CAF1
Location	9,035,964 – 9,036,073
Length	109
Max. P	0.522924

overview

Window 5

Location	9,035,964 – 9,036,073
Length	109
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	79.08
Mean single sequence MFE	-41.98
Consensus MFE	-21.98
Energy contribution	-22.17
Covariance contribution	0.20
Combinations/Pair	1.16
Mean z-score	-1.86
Structure conservation index	0.52
SVM decision value	-0.02
SVM RNA-class probability	0.522924
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9035964 109 + 27905053
GGAUGCGAGAGGGGAAAUCACCGUCAUCGGCAUCCAAAGGCGCCGUACUCCAGAUGAUGGCCAGAUUCUGGCCCAUCGUAAAGCGAUCUGUUAAUAGAU-UGAUGUCGCA
((((((((((.((.......)).)).)).))))))....(((.(((.......(((((((((((...)))).)))))))....(((((((....)))))-))))).))). ( -41.40)
>DroPse_CAF1 153355 110 + 1
GGAUGCGGGAGGGGAAGUCCCCGUCGUCGGCGUCCAGCGGCGCCGUGCUCCAGAUAAUGGCCAAGUUCUGGCCCAUGGUGAAGCGAUCUGUCAGCACACGUGGGGAAACA
((((((.((.((((....))))....)).))))))..(.(((..(((((.(((((...(((((.....)))))....(.....).)))))..))))).))).)(....). ( -45.20)
>DroEre_CAF1 156469 109 + 1
GGAUGCGAGAGGGGAAAUCACCGUCAUCGGCGUCCAAGGGGACCGUACUCCAGAUAAUGGCCAGAUUCUGGCCCAUUGUAAAGCGAUCUGUCAGUAGAU-UGAUGUCGCA
((((((((((.((.......)).)).)).))))))..((((......))))..(((((((((((...)))).)))))))...(((((..(((((....)-))))))))). ( -41.30)
>DroMoj_CAF1 201174 96 + 1
GGAUGCGCGAUGGGAAAUCGCCAUCGUCGGGGUCCAGUGGCGCAGUGCUCCAGAUGACAGCCAGAUUCUGGCCCAUGGUAAAGCGAUCUAU------------GG--GUA
.((((.(((((.....)))))))))..(((((((...((((.((...(....).))...)))))))))))((((((((.........))))------------))--)). ( -35.30)
>DroAna_CAF1 160601 109 + 1
GGAUGCGCGAGGGGAAGUCCCCAUCAUCGGCAUCCAACGGCGCCGUGCUCCAGAUAAUGGCCAGAUUCUGGCCCAUCGUGAAGCGAUCUAUUAAGGAAA-AUAGGUUACA
((((((.(((((((....))))....))))))))).(((....)))(((.(((((...((((((...)))))).))).)).)))((((((((......)-)))))))... ( -43.30)
>DroPer_CAF1 154543 110 + 1
GGAUGCGGGAGGGGAAGUCCCCGUCGUCGGCGUCCAGCGGCGCCGUGCUCCAAAUAAUGGCCAAGUUCUGGCCCAUGGUGAAGCGAUCUGUCAGCACACGUCGGGAAACA
((((((.((.((((....))))....)).)))))).((..(((((((...........(((((.....))))))))))))..))(((.(((....))).))).(....). ( -45.40)
>consensus
GGAUGCGAGAGGGGAAAUCCCCGUCAUCGGCGUCCAACGGCGCCGUGCUCCAGAUAAUGGCCAGAUUCUGGCCCAUGGUAAAGCGAUCUGUCAGCACAC_UGAGGUAACA
((((((((((.((.......)).)).)).))))))...(((((..(((..........(((((.....)))))....)))..))).))...................... (-21.98 = -22.17 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	9,035,964 – 9,036,073
Length	109
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	79.08
Mean single sequence MFE	-35.75
Consensus MFE	-24.51
Energy contribution	-23.90
Covariance contribution	-0.61
Combinations/Pair	1.22
Mean z-score	-1.10
Structure conservation index	0.69
SVM decision value	-0.05
SVM RNA-class probability	0.505713
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9035964 109 - 27905053
UGCGACAUCA-AUCUAUUAACAGAUCGCUUUACGAUGGGCCAGAAUCUGGCCAUCAUCUGGAGUACGGCGCCUUUGGAUGCCGAUGACGGUGAUUUCCCCUCUCGCAUCC
(((((((((.-((((......)))).((((((.((((((((((...))))))..))))))))))..((((((...)).))))))))..((.(....).))..)))))... ( -35.20)
>DroPse_CAF1 153355 110 - 1
UGUUUCCCCACGUGUGCUGACAGAUCGCUUCACCAUGGGCCAGAACUUGGCCAUUAUCUGGAGCACGGCGCCGCUGGACGCCGACGACGGGGACUUCCCCUCCCGCAUCC
....(((((.((((((((..(((((..(........)((((((...))))))...))))).)))))((((((...)).)))).)))..)))))................. ( -38.10)
>DroEre_CAF1 156469 109 - 1
UGCGACAUCA-AUCUACUGACAGAUCGCUUUACAAUGGGCCAGAAUCUGGCCAUUAUCUGGAGUACGGUCCCCUUGGACGCCGAUGACGGUGAUUUCCCCUCUCGCAUCC
(((((((((.-...((((..(((((..(........)((((((...))))))...))))).))))..((((....))))...))))..((.(....).))..)))))... ( -31.20)
>DroMoj_CAF1 201174 96 - 1
UAC--CC------------AUAGAUCGCUUUACCAUGGGCCAGAAUCUGGCUGUCAUCUGGAGCACUGCGCCACUGGACCCCGACGAUGGCGAUUUCCCAUCGCGCAUCC
...--..------------...((((((.......((((((((...))))).(((...(((.((...)).)))...))).)))..(((((.(....))))))))).))). ( -28.40)
>DroAna_CAF1 160601 109 - 1
UGUAACCUAU-UUUCCUUAAUAGAUCGCUUCACGAUGGGCCAGAAUCUGGCCAUUAUCUGGAGCACGGCGCCGUUGGAUGCCGAUGAUGGGGACUUCCCCUCGCGCAUCC
......((((-(......)))))...((((((.((((((((((...))))))..))))))))))(((....))).(((((((((....((((....))))))).)))))) ( -43.30)
>DroPer_CAF1 154543 110 - 1
UGUUUCCCGACGUGUGCUGACAGAUCGCUUCACCAUGGGCCAGAACUUGGCCAUUAUUUGGAGCACGGCGCCGCUGGACGCCGACGACGGGGACUUCCCCUCCCGCAUCC
...((((((.(((.............((((((.....((((((...))))))......)))))).(((((((...)).)))))))).))))))................. ( -38.30)
>consensus
UGCGACCUCA_AUCUACUGACAGAUCGCUUCACCAUGGGCCAGAAUCUGGCCAUUAUCUGGAGCACGGCGCCGCUGGACGCCGACGACGGGGACUUCCCCUCCCGCAUCC
......................((((((((((.....((((((...))))))......)))))).(((((((...)).)))))..((.((.......)).))..).))). (-24.51 = -23.90 +  -0.61)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:02 2006