Locus 2766

Sequence ID X_DroMel_CAF1
Location 7,454,634 – 7,454,782
Length 148
Max. P 0.998543
window4515 window4516 window4517 window4518

overview

Window 5

Location 7,454,634 – 7,454,744
Length 110
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.76
Mean single sequence MFE -28.95
Consensus MFE -28.04
Energy contribution -27.90
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -1.07
Structure conservation index 0.97
SVM decision value 1.10
SVM RNA-class probability 0.914972
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7454634 110 + 22224390
----------CCCAAGAAAGCCCACGAAUGCAGCCAACAUUGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAA
----------.........((((..((..((((((..((...(((....(.((((...)))).)...)))...))..))))))))((((((((...)))))))).........)).)).. ( -28.40)
>DroSec_CAF1 203028 110 + 1
----------CCCAAGAAAGCUCACGAAUGCAGCCAACAUUGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAA
----------.........((((..((..((((((..((...(((....(.((((...)))).)...)))...))..))))))))((((((((...))))))))..........)))).. ( -29.90)
>DroEre_CAF1 218451 110 + 1
----------CCCAAGAAAGCCCACGAAUGCAGCCAACAUUGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAA
----------.........((((..((..((((((..((...(((....(.((((...)))).)...)))...))..))))))))((((((((...)))))))).........)).)).. ( -28.40)
>DroWil_CAF1 234682 110 + 1
----------ACGGAAAAAGCCCACGAAUGCAGCCAACAUUGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAA
----------.........((((..((..((((((..((...(((....(.((((...)))).)...)))...))..))))))))((((((((...)))))))).........)).)).. ( -28.40)
>DroYak_CAF1 249407 110 + 1
----------CCCAAGAAAGCCCACGAAUGCAGCCAACAUUGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAA
----------.........((((..((..((((((..((...(((....(.((((...)))).)...)))...))..))))))))((((((((...)))))))).........)).)).. ( -28.40)
>DroAna_CAF1 207364 120 + 1
GGAACCACACCACUGGAAAGCCCACGAAUGCAGCCAACAUUGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAA
....(((......)))...((((..((..((((((..((...(((....(.((((...)))).)...)))...))..))))))))((((((((...)))))))).........)).)).. ( -30.20)
>consensus
__________CCCAAGAAAGCCCACGAAUGCAGCCAACAUUGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAA
...................((((..((..((((((..((...(((....(.((((...)))).)...)))...))..))))))))((((((((...)))))))).........)).)).. (-28.04 = -27.90 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 6

Location 7,454,634 – 7,454,744
Length 110
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 94.76
Mean single sequence MFE -33.48
Consensus MFE -32.69
Energy contribution -32.55
Covariance contribution -0.14
Combinations/Pair 1.03
Mean z-score -0.87
Structure conservation index 0.98
SVM decision value 0.57
SVM RNA-class probability 0.784269
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7454634 110 - 22224390
UUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCAAUGUUGGCUGCAUUCGUGGGCUUUCUUGGG----------
.....(((....((((..(((((((.....)))))(((((((((.((...(((((..((((((....)))))))))))...)).))))))..)))..))..))))..)))---------- ( -33.10)
>DroSec_CAF1 203028 110 - 1
UUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCAAUGUUGGCUGCAUUCGUGAGCUUUCUUGGG----------
..((((.....((((....((((((.....))))))..((((((.((...(((((..((((((....)))))))))))...)).))))))..)))).)))).........---------- ( -33.30)
>DroEre_CAF1 218451 110 - 1
UUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCAAUGUUGGCUGCAUUCGUGGGCUUUCUUGGG----------
.....(((....((((..(((((((.....)))))(((((((((.((...(((((..((((((....)))))))))))...)).))))))..)))..))..))))..)))---------- ( -33.10)
>DroWil_CAF1 234682 110 - 1
UUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCAAUGUUGGCUGCAUUCGUGGGCUUUUUCCGU----------
..((.((....((((....((((((.....))))))..((((((.((...(((((..((((((....)))))))))))...)).))))))..)))).)))).........---------- ( -33.00)
>DroYak_CAF1 249407 110 - 1
UUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCAAUGUUGGCUGCAUUCGUGGGCUUUCUUGGG----------
.....(((....((((..(((((((.....)))))(((((((((.((...(((((..((((((....)))))))))))...)).))))))..)))..))..))))..)))---------- ( -33.10)
>DroAna_CAF1 207364 120 - 1
UUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCAAUGUUGGCUGCAUUCGUGGGCUUUCCAGUGGUGUGGUUCC
(..(.((.....((((..(((((((.....)))))(((((((((.((...(((((..((((((....)))))))))))...)).))))))..)))..))..))))....)).)..).... ( -35.30)
>consensus
UUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCAAUGUUGGCUGCAUUCGUGGGCUUUCUUGGG__________
..((((.....((((....((((((.....))))))..((((((.((...(((((..((((((....)))))))))))...)).))))))..)))).))))................... (-32.69 = -32.55 +  -0.14)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,454,664 – 7,454,782
Length 118
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 97.19
Mean single sequence MFE -32.70
Consensus MFE -32.70
Energy contribution -32.70
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.57
Structure conservation index 1.00
SVM decision value 3.14
SVM RNA-class probability 0.998543
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7454664 118 + 22224390
UGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAAAUUUAUUUAUUGGCACAGUUUUGGCAACAGGUAAGAAA--
((((....((((((.(((((((((.((......)).)))))))))((((((((...))))))))...........))).(((......)))))).......((....)))))).....-- ( -32.70)
>DroSec_CAF1 203058 118 + 1
UGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAAAUUUAUUUAUUGGCACAGUUUUGGCAACAGGUAAGAAA--
((((....((((((.(((((((((.((......)).)))))))))((((((((...))))))))...........))).(((......)))))).......((....)))))).....-- ( -32.70)
>DroEre_CAF1 218481 118 + 1
UGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAAAUUUAUUUAUUGGCACAGUUUUGGCAACAGGUAAGCAA--
((((....((((((.(((((((((.((......)).)))))))))((((((((...))))))))...........))).(((......)))))).......((....)))))).....-- ( -32.70)
>DroWil_CAF1 234712 120 + 1
UGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAAAUUUAUUUAUUGGCACAAUUUUGGCAACAGGUAAGAGUCA
((((....((((((.(((((((((.((......)).)))))))))((((((((...))))))))...........))).(((......)))))).......((....))))))....... ( -32.70)
>DroYak_CAF1 249437 118 + 1
UGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAAAUUUAUUUAUUGGCACAGUUUUGGCAACAGGUAAGCCA--
((((....((((((.(((((((((.((......)).)))))))))((((((((...))))))))...........))).(((......)))))).......((....)))))).....-- ( -32.70)
>DroAna_CAF1 207404 118 + 1
UGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAAAUUUAUUUAUUGGCACAAUUUUGGCAACAGGUAAGUUC--
((((....((((((.(((((((((.((......)).)))))))))((((((((...))))))))...........))).(((......)))))).......((....)))))).....-- ( -32.70)
>consensus
UGCCACAAGCCGCUGGGACAGCCGAUAUGGAUCUGACGGCUGUUCAAUCAAUCAACGAUUGGUUUUUCAAAAAGGAGCAAAUUUAUUUAUUGGCACAGUUUUGGCAACAGGUAAGAAA__
((((....((((((.(((((((((.((......)).)))))))))((((((((...))))))))...........))).(((......)))))).......((....))))))....... (-32.70 = -32.70 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,454,664 – 7,454,782
Length 118
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 97.19
Mean single sequence MFE -27.45
Consensus MFE -26.47
Energy contribution -26.47
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -0.83
Structure conservation index 0.96
SVM decision value 0.36
SVM RNA-class probability 0.705952
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7454664 118 - 22224390
--UUUCUUACCUGUUGCCAAAACUGUGCCAAUAAAUAAAUUUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCA
--............(((((.......(((..............................((((((.....)))))).(((((((............)))))))......)))...))))) ( -26.30)
>DroSec_CAF1 203058 118 - 1
--UUUCUUACCUGUUGCCAAAACUGUGCCAAUAAAUAAAUUUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCA
--............(((((.......(((..............................((((((.....)))))).(((((((............)))))))......)))...))))) ( -26.30)
>DroEre_CAF1 218481 118 - 1
--UUGCUUACCUGUUGCCAAAACUGUGCCAAUAAAUAAAUUUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCA
--.((((.((..((((((((((..(.((.(((......))).)).)..)))))......((((((.....)))))).(((((((............)))))))....)))))..)))))) ( -29.10)
>DroWil_CAF1 234712 120 - 1
UGACUCUUACCUGUUGCCAAAAUUGUGCCAAUAAAUAAAUUUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCA
......((((..((((((((((..(.((.(((......))).)).)..)))))......((((((.....)))))).(((((((............)))))))....)))))..)))).. ( -27.00)
>DroYak_CAF1 249437 118 - 1
--UGGCUUACCUGUUGCCAAAACUGUGCCAAUAAAUAAAUUUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCA
--..(((.((..((((((((((..(.((.(((......))).)).)..)))))......((((((.....)))))).(((((((............)))))))....)))))..))))). ( -29.00)
>DroAna_CAF1 207404 118 - 1
--GAACUUACCUGUUGCCAAAAUUGUGCCAAUAAAUAAAUUUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCA
--....((((..((((((((((..(.((.(((......))).)).)..)))))......((((((.....)))))).(((((((............)))))))....)))))..)))).. ( -27.00)
>consensus
__UUUCUUACCUGUUGCCAAAACUGUGCCAAUAAAUAAAUUUGCUCCUUUUUGAAAAACCAAUCGUUGAUUGAUUGAACAGCCGUCAGAUCCAUAUCGGCUGUCCCAGCGGCUUGUGGCA
......((((..((((((((((..(.((.(((......))).)).)..)))))......((((((.....)))))).(((((((............)))))))....)))))..)))).. (-26.47 = -26.47 +  -0.00)

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 10:42:42 2006