Locus 8591

Sequence ID X_DroMel_CAF1
Location 21,307,948 – 21,308,131
Length 183
Max. P 0.875423
window14125 window14126 window14127

overview

Window 5

Location 21,307,948 – 21,308,053
Length 105
Sequences 4
Columns 107
Reading direction reverse
Mean pairwise identity 76.17
Mean single sequence MFE -25.05
Consensus MFE -12.46
Energy contribution -12.58
Covariance contribution 0.12
Combinations/Pair 1.38
Mean z-score -2.41
Structure conservation index 0.50
SVM decision value 0.89
SVM RNA-class probability 0.875423
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21307948 105 - 22224390
UCUGUGUGAGUGUGACCAUACAGACACAAGCGUA--CAUAUGUAUGUGUGUAACUCACAGAGAGAAAAAUUACCAUAGAACUCAGAGGUAUCUUAAAGAUACACUCA
(((.((((((((((....)))..((((..(((((--(....)))))))))).))))))).))).....................((((((((.....))))).))). ( -31.10)
>DroSec_CAF1 49452 93 - 1
UCUGUGUGAGUGUGACCAUAC------AAGCAUA--CAUA----UGUGUGUAACUCACAGAGAGAAAAAUCACCAUGGACUUCAGUGGUAUCUUGAAGAUA--CUCA
((((((.(.((((....))))------..(((((--(...----.))))))..).))))))(((.......(((((.(....).)))))(((.....))).--))). ( -24.80)
>DroSim_CAF1 45892 93 - 1
UCUGUGUGAGUGUGACCAUAC------AAGCAUA--CAUA----UGUGUGUAACUCACAGAGAGAAAAAUCACCAUGGAAUUCAGUGGUAUCUUGAAGAUA--CUCA
((((((.(.((((....))))------..(((((--(...----.))))))..).))))))(((.......(((((.(....).)))))(((.....))).--))). ( -24.80)
>DroEre_CAF1 48503 92 - 1
UUUGUGUGCGUGUGACCACAC------AGACACAAGCAUA----UGUGUGCACU-UGCAGUGAGAAAAAUUGCCGUCAAAUUUACUAUUUUUUU--AGUUA--CUUA
..((((((.(.....))))))------)(((....((((.----...))))...-.(((((.......))))).)))......((((......)--)))..--.... ( -19.50)
>consensus
UCUGUGUGAGUGUGACCAUAC______AAGCAUA__CAUA____UGUGUGUAACUCACAGAGAGAAAAAUCACCAUGGAAUUCAGUGGUAUCUUGAAGAUA__CUCA
(((.(((((((.....(((((........................)))))..))))))).)))........(((((.(....).))))).................. (-12.46 = -12.58 +   0.12)

alignment

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secondary structure

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Window 6

Location 21,307,978 – 21,308,093
Length 115
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 86.04
Mean single sequence MFE -27.80
Consensus MFE -17.72
Energy contribution -17.76
Covariance contribution 0.04
Combinations/Pair 1.20
Mean z-score -2.52
Structure conservation index 0.64
SVM decision value 0.53
SVM RNA-class probability 0.770616
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21307978 115 - 22224390
AUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUCUGUGUGAGUGUGACCAUACAGACACAAGCGUA--CAUAUGUAUGUGUGUAACUCACAGAGAGAAAAAUUACCAUA
...((((.((((((.....(((........)))......((((.((((((((((....)))..((((..(((((--(....)))))))))).))))))).)))).)))))).)))). ( -31.90)
>DroSec_CAF1 49480 105 - 1
AUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUCUGUGUGAGUGUGACCAUAC------AAGCAUA--CAUA----UGUGUGUAACUCACAGAGAGAAAAAUCACCAUG
...((((..(((((.....(((........)))......((((.((((((((((....)))------..(((((--(...----.)))))).))))))).)))).)))))..)))). ( -29.50)
>DroSim_CAF1 45920 105 - 1
AUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUCUGUGUGAGUGUGACCAUAC------AAGCAUA--CAUA----UGUGUGUAACUCACAGAGAGAAAAAUCACCAUG
...((((..(((((.....(((........)))......((((.((((((((((....)))------..(((((--(...----.)))))).))))))).)))).)))))..)))). ( -29.50)
>DroEre_CAF1 48529 106 - 1
AUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUUUGUGUGCGUGUGACCACAC------AGACACAAGCAUA----UGUGUGCACU-UGCAGUGAGAAAAAUUGCCGUC
..(((((.((((((..........(((((((..........((((((..((((....))))------..))))))(((..----((....))..-)))))))))))))))).))))) ( -27.10)
>DroYak_CAF1 51079 106 - 1
AUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUCUGUGUGAGUGUGACCAUAC------AGACACAAGCAUA----UGUGUGUGAC-UGCAGUGAGAAAAAAUACCUUG
.....(((.(((((.........((((((((.........((((((((........)))))------)))((((.((...----.)).))))..-...))))))))))))).))).. ( -21.00)
>consensus
AUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUCUGUGUGAGUGUGACCAUAC______AAGCAUA__CAUA____UGUGUGUAACUCACAGAGAGAAAAAUUACCAUG
..((((..((.(((.....))).))..))))........((((.(((((((.....(((((........................)))))..))))))).))))............. (-17.72 = -17.76 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 21,308,018 – 21,308,131
Length 113
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 79.03
Mean single sequence MFE -26.38
Consensus MFE -14.38
Energy contribution -15.22
Covariance contribution 0.83
Combinations/Pair 1.00
Mean z-score -2.25
Structure conservation index 0.55
SVM decision value 0.81
SVM RNA-class probability 0.856000
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21308018 113 - 22224390
AAAAAUCG--GGAGCAAAAUGCCCCAGAGCACAAUAAGGGAUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUCUGUGUGAGUGUGACCAUA---CAGACACAAGCGUA--C
.......(--((.((.....)))))...((....(((((((.((((..((.(((.....))).))..)))))))))))..((((((((........))))---)))).....))...--. ( -32.40)
>DroPse_CAF1 99346 97 - 1
AAAAAACCAAAAGGCAAAAUGCCCCAGAGCACAAUAAGGGAUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUUUGUGUGUGUG-GACGA----------------------
............(((.....)))(((..(((((((((((((.((((..((.(((.....))).))..)))))))))))...))))))...))-)....---------------------- ( -25.90)
>DroEre_CAF1 48564 107 - 1
GAAAAUCG--GG--CGAAAUGCCCCAGAGCACAAUAAGGGAUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUUUGUGUGCGUGUGACCACA---C------AGACACAAGC
.......(--((--(.....))))....((....(((((((.((((..((.(((.....))).))..)))))))))))...((((((..((((....)))---)------..)))))))) ( -30.70)
>DroYak_CAF1 51114 109 - 1
AAAAAUCG--GGACCCAAAUGCCCCAGAGCACAAUAAGGGAUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUCUGUGUGAGUGUGACCAUA---C------AGACACAAGC
.......(--((..........)))...((....(((((((.((((..((.(((.....))).))..)))))))))))..((((((((........))))---)------))).....)) ( -26.60)
>DroAna_CAF1 40345 103 - 1
AAAAAUUG--GAAGCAAAAUGCCCCAGAGCACAAUAAGGGAUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACACA-------CACGGCCACAGGAC------ACACACA--C
.....(((--...((....(((......)))...(((((((.((((..((.(((.....))).))..))))))))))).....-------....))..)))...------.......--. ( -16.80)
>DroPer_CAF1 75844 97 - 1
AAAAAACCAAAAGGCAAAAUGCCCCAGAGCACAAUAAGGGAUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUUUGUGUGUGUG-GACGA----------------------
............(((.....)))(((..(((((((((((((.((((..((.(((.....))).))..)))))))))))...))))))...))-)....---------------------- ( -25.90)
>consensus
AAAAAUCG__GAAGCAAAAUGCCCCAGAGCACAAUAAGGGAUGAUGGGAAUUUUACUAAGAAUUUUUCAUUUCCUUUAACUCUGUGUGAGUGUGACCA_A___C______A_ACACA__C
............................(((((.(((((((.((((..((.(((.....))).))..)))))))))))....)))))................................. (-14.38 = -15.22 +   0.83)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:07:59 2006