Locus 4029

Sequence ID X_DroMel_CAF1
Location 10,647,519 – 10,647,679
Length 160
Max. P 0.971862
window6622 window6623 window6624 window6625

overview

Window 2

Location 10,647,519 – 10,647,609
Length 90
Sequences 5
Columns 101
Reading direction forward
Mean pairwise identity 75.95
Mean single sequence MFE -15.17
Consensus MFE -2.10
Energy contribution -2.94
Covariance contribution 0.84
Combinations/Pair 1.08
Mean z-score -1.45
Structure conservation index 0.14
SVM decision value 0.01
SVM RNA-class probability 0.540500
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10647519 90 + 22224390
UCACUACGGCGCCCUGCCUCUGUCCCACUCACACUCAUUAGGCACUAGUCAGUGCAACAAUUUUACAUUUU-UG------UUUUUGUUUUA----UGCCGU
.....(((((((.(((.((..((.((..............)).)).)).))).))(((((....(((....-))------)..)))))...----.))))) ( -18.64)
>DroSec_CAF1 4892 84 + 1
UCACCACGGCGCCCUACCUCUGUCCCACUCACACUCAUUAGCCACAAGUCUGUGCAACAAUUAUACAUUUU-U------------GUUUUG----UGCCGU
.....(((((((............................((.(((....)))))(((((..........)-)------------)))..)----)))))) ( -14.60)
>DroEre_CAF1 5085 90 + 1
UCACCACGGCGCCCUGUCUCUGUCUCACUCACACUCAUUAACCACUAGUCUGUGCAACAAUUAUACAGUUU-UG------UUUUUGUUUUG----UGCUGU
.....(((((((...................(((..((((.....))))..))).(((((..(((......-))------)..)))))..)----)))))) ( -13.60)
>DroYak_CAF1 5180 90 + 1
UCACCACGGCGCCCUAUCUCUGUCUCACUCACACUCAUUAACAACUAGUGUGUGCAACAAUUUUACAUUUU-UG------UUUUUGUUUUG----UGCUGU
.....(((((((...................(((.(((((.....))))).))).(((((....(((....-))------)..)))))..)----)))))) ( -17.60)
>DroAna_CAF1 5458 89 + 1
UU-------CGCCCUCUCUCUGUCU-ACU-AAAGUCAUUAACC---AGACUGUGCAACAAUUUCACCUUUCUUGUGCUUCUUCUUGGUCUGUUACUGUUGU
..-------................-((.-..(((.((..(((---(((..(..(((.((........)).)))..)....)).))))..)).)))...)) ( -11.40)
>consensus
UCACCACGGCGCCCUAUCUCUGUCUCACUCACACUCAUUAACCACUAGUCUGUGCAACAAUUUUACAUUUU_UG______UUUUUGUUUUG____UGCUGU
.....((((((......)..(((..(((.......................)))..))).....................................))))) ( -2.10 =  -2.94 +   0.84)

alignment

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secondary structure

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Window 3

Location 10,647,550 – 10,647,642
Length 92
Sequences 4
Columns 99
Reading direction forward
Mean pairwise identity 85.66
Mean single sequence MFE -21.12
Consensus MFE -13.59
Energy contribution -15.15
Covariance contribution 1.56
Combinations/Pair 1.09
Mean z-score -1.98
Structure conservation index 0.64
SVM decision value 0.30
SVM RNA-class probability 0.678231
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10647550 92 + 22224390
CACUCAUUAGGCACUAGUCAGUGCAACAAUUUUACAUUUUUGUUUUUGUUUUAUGCCGUGGUUGUUUUCAUAUAACCAGGUGUGCACACAUG-------
.........(((....))).(((((((((....(((....)))..)))))..(((((.(((((((......)))))))))))))))).....------- ( -23.20)
>DroSec_CAF1 4923 86 + 1
CACUCAUUAGCCACAAGUCUGUGCAACAAUUAUACAUUUUU------GUUUUGUGCCGUGGUUGUUUUCAUAUAACCAGGUGUGCACACAUG-------
................((.((((((((((....(((....)------)).))))(((.(((((((......)))))))))).)))))).)).------- ( -21.00)
>DroEre_CAF1 5116 99 + 1
CACUCAUUAACCACUAGUCUGUGCAACAAUUAUACAGUUUUGUUUUUGUUUUGUGCUGUGGUUGUUUUCAUUUUACCAGGUGUGCACACAUGUACAUAU
.......(((((((......(..((((((..(((......)))..))))..))..).)))))))...............(((((((....))))))).. ( -19.90)
>DroYak_CAF1 5211 95 + 1
CACUCAUUAACAACUAGUGUGUGCAACAAUUUUACAUUUUUGUUUUUGUUUUGUGCUGUGGUUGUUUUCAUUUUACCAGGUGUGCACACAUGU----AU
................(((((((((((((....(((....)))..)))))..(..((.((((............))))))..)))))))))..----.. ( -20.40)
>consensus
CACUCAUUAACCACUAGUCUGUGCAACAAUUAUACAUUUUUGUUUUUGUUUUGUGCCGUGGUUGUUUUCAUAUAACCAGGUGUGCACACAUG_______
....................(((((((((....(((....)))..)))))..(..((.(((((((......)))))))))..)))))............ (-13.59 = -15.15 +   1.56)

alignment

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secondary structure

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Window 4

Location 10,647,580 – 10,647,679
Length 99
Sequences 3
Columns 109
Reading direction forward
Mean pairwise identity 84.23
Mean single sequence MFE -26.16
Consensus MFE -19.31
Energy contribution -19.32
Covariance contribution 0.01
Combinations/Pair 1.13
Mean z-score -2.93
Structure conservation index 0.74
SVM decision value 1.49
SVM RNA-class probability 0.958210
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10647580 99 + 22224390
UUUACAUUUUUGUUUUUGUUUUAUGCCGUGGUUGUUUUCAUAUAACCAGGUGUGCACACAUG----------UGUAUGUGUGAAUGUUGUUUCUUUUACCUGACAUGUG
.....................((((((.(((((((......)))))))))))))..((((((----------(.((.(((.(((......)))...))).))))))))) ( -22.60)
>DroSec_CAF1 4953 93 + 1
UAUACAUUUUU------GUUUUGUGCCGUGGUUGUUUUCAUAUAACCAGGUGUGCACACAUG----------UGCAUGUGUGAAUGUUGUUUCUUUUACCUGACAUGUG
...........------....((..((.(((((((......))))))).).)..))((((((----------(.((.(((.(((......)))...))).))))))))) ( -26.10)
>DroEre_CAF1 5146 109 + 1
UAUACAGUUUUGUUUUUGUUUUGUGCUGUGGUUGUUUUCAUUUUACCAGGUGUGCACACAUGUACAUAUGGGUGCAUGUGUGUAUGUUGUUCCUUUUACCUGACAUGUG
..((((((................))))))................(((((((((((((((((((......))))))))))))))............)))))....... ( -29.79)
>consensus
UAUACAUUUUUGUUUUUGUUUUGUGCCGUGGUUGUUUUCAUAUAACCAGGUGUGCACACAUG__________UGCAUGUGUGAAUGUUGUUUCUUUUACCUGACAUGUG
......................(..((.(((((((......)))))))))..).((((((((............)))))))).(((((.............)))))... (-19.31 = -19.32 +   0.01)

alignment

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secondary structure

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dotplot

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Window 5

Location 10,647,580 – 10,647,679
Length 99
Sequences 3
Columns 109
Reading direction reverse
Mean pairwise identity 84.23
Mean single sequence MFE -17.32
Consensus MFE -13.47
Energy contribution -14.13
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.00
Structure conservation index 0.78
SVM decision value 1.68
SVM RNA-class probability 0.971862
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10647580 99 - 22224390
CACAUGUCAGGUAAAAGAAACAACAUUCACACAUACA----------CAUGUGUGCACACCUGGUUAUAUGAAAACAACCACGGCAUAAAACAAAAACAAAAAUGUAAA
.((((..(((((....(((......)))((((((...----------.))))))....)))))(((.((((....(......).)))).)))..........))))... ( -16.40)
>DroSec_CAF1 4953 93 - 1
CACAUGUCAGGUAAAAGAAACAACAUUCACACAUGCA----------CAUGUGUGCACACCUGGUUAUAUGAAAACAACCACGGCACAAAAC------AAAAAUGUAUA
....((((((((....(((......))).....((((----------(....))))).))))((((..........))))..))))......------........... ( -16.10)
>DroEre_CAF1 5146 109 - 1
CACAUGUCAGGUAAAAGGAACAACAUACACACAUGCACCCAUAUGUACAUGUGUGCACACCUGGUAAAAUGAAAACAACCACAGCACAAAACAAAAACAAAACUGUAUA
....(..(((((....(......)...((((((((.((......)).))))))))...)))))..)..............((((..................))))... ( -19.47)
>consensus
CACAUGUCAGGUAAAAGAAACAACAUUCACACAUGCA__________CAUGUGUGCACACCUGGUUAUAUGAAAACAACCACGGCACAAAACAAAAACAAAAAUGUAUA
..((((((((((....(......)...((((((((............))))))))...))))))...))))...................................... (-13.47 = -14.13 +   0.67)

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 11:14:40 2006