Locus 6064

Sequence ID 2L_DroMel_CAF1
Location 17,051,299 – 17,051,742
Length 443
Max. P 0.999940
window9639 window9640 window9641 window9642 window9643 window9644 window9645 window9646 window9647

overview

Window 9

Location 17,051,299 – 17,051,402
Length 103
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.34
Mean single sequence MFE -30.43
Consensus MFE -22.09
Energy contribution -22.45
Covariance contribution 0.36
Combinations/Pair 1.17
Mean z-score -1.69
Structure conservation index 0.73
SVM decision value 0.11
SVM RNA-class probability 0.587170
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051299 103 - 22407834
AAGCAGCGAUCCGACGCCAUAAAUGUUGCUCCUCCAACUCCGGCUCCAUAUCCUGC---UGAUCCUUUGGAGUCGGGCCAC--------------CAACUCGAGUGGCAGCCAAGAACUA
..((.(((......))).......((((......)))).(((((((((.(((....---.)))....)))))))))(((((--------------........))))).))......... ( -28.90)
>DroSec_CAF1 15213 103 - 1
AAGCAGCGAUCUGACGCCAUAAAUGUUGCUCCUCCAACUCCGUCUCCAUAUCCUGC---UGCUCCUUUGGAGCUAGGCCAC--------------CAACUCGAGUGGCAACCAACAACUA
.(((((.(((..((((........((((......))))..)))).....)))))))---)(((((...)))))...(((((--------------........)))))............ ( -27.00)
>DroSim_CAF1 9496 103 - 1
AAGCAGCGAUCCGACGCCAUAAAUGUUUCUCCUCCAACUCCGGCUCCAUAUCCUGC---UGCUCCUUUGGAGCUGGGCCAC--------------CAACUCGAGUGGCAACCAACAACUA
.(((((.(((..((.(((......(((........)))...)))))...)))))))---)(((((...)))))((((((((--------------........)))))..)))....... ( -28.10)
>DroEre_CAF1 15084 117 - 1
AAGCAGCGAUCCGACGCCAUAAAUGUUGCUCCUCCAACUCGGGCUCCAUGCCCUGC---UGCUCCUUUGGAGUUGGGCCACCAGCCACCAGUCACCAGCUCGAGUGGCGACCGACAACUA
.....(((......)))......(((((.((..(((.(((((((.....)))).((---((.....((((.(((((....)))))..))))....))))..)))))).)).))))).... ( -37.90)
>DroYak_CAF1 13136 106 - 1
AAGCAGCGAUCCGACGCCAUAAAUGUUGCUCCUCCAACUCCGGCUCCAUGUCCUGCACUUGCUCCUUUGGAGCUGGGCCUC--------------CAACUCGAGUGGCAACCCACAACUA
.....(((......))).......(((((..(((....((((((((((......((....)).....))))))))))....--------------......)))..)))))......... ( -30.24)
>consensus
AAGCAGCGAUCCGACGCCAUAAAUGUUGCUCCUCCAACUCCGGCUCCAUAUCCUGC___UGCUCCUUUGGAGCUGGGCCAC______________CAACUCGAGUGGCAACCAACAACUA
.....(((......))).......(((((..(((....((((((((((......((....)).....))))))))))........................)))..)))))......... (-22.09 = -22.45 +   0.36)

alignment

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secondary structure

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Window 0

Location 17,051,402 – 17,051,514
Length 112
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.97
Mean single sequence MFE -40.10
Consensus MFE -35.84
Energy contribution -35.68
Covariance contribution -0.16
Combinations/Pair 1.04
Mean z-score -1.18
Structure conservation index 0.89
SVM decision value 0.11
SVM RNA-class probability 0.590204
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051402 112 - 22407834
CAAAAAAAGGAGGUGGUGCACGGUGGAAG--------GGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUGGUCAAAGCAUUGCGUCAGUCAAGUGGCACUCGGAACAGUU
.........((((..(((((((((((...--------((((((((((((..........)))).)))))))).)))))..))....))))..)((((......)))).)))......... ( -37.80)
>DroSec_CAF1 15316 112 - 1
CAAAAAAAGGGGGUGGUGCACGGUGGACG--------GGGUGACAGCCACAAAGACGCUUGGCUUGUCACCCGCUACUUGGUCAAAGCAUUGCGUCAGUCAAGUGGCACUCGGAACAGUU
..........(((((.(((..((..((((--------((((((((((((..........)))).))))))))(((..........)))....))))..))..))).)))))......... ( -37.80)
>DroSim_CAF1 9599 112 - 1
CAAAAAAAGGGGGUGGUGCACGGUGGACG--------GGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUGGUCAAAGCAUUGCGUCAGUCAAGUGGCACUCGGAACAGUU
..........(((((.(((..((..((((--------((((((((((((..........)))).))))))))(((..........)))....))))..))..))).)))))......... ( -37.80)
>DroEre_CAF1 15201 119 - 1
CAAA-AAAGGGGGUGGUGCUCGGUGGACGGGUGGAGGGGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUGGUCAAAGCAUUGCGUCAGUCAAGUGGCACUCGGAACAGUU
....-...(((.(..(((((...((..(((((((...((((((((((((..........)))).)))))))).)))))))..)).)))))..)((((......)))).)))......... ( -46.90)
>DroYak_CAF1 13242 112 - 1
CAAAAAAAGGGGGUGGUGCUCGGUAGACG--------GGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUGGUCAAAGCAUUGCGUCAGUCAAGUGGCACUCGGAACAGUU
..........(((((.((((.((..((((--------((((((((((((..........)))).))))))))(((..........)))....))))..)).)))).)))))......... ( -40.20)
>consensus
CAAAAAAAGGGGGUGGUGCACGGUGGACG________GGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUGGUCAAAGCAUUGCGUCAGUCAAGUGGCACUCGGAACAGUU
.........(((.........................((((((((((((..........)))).))))))))(((((((((.....((...)).....))))))))).)))......... (-35.84 = -35.68 +  -0.16)

alignment

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secondary structure

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Window 1

Location 17,051,442 – 17,051,544
Length 102
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.74
Mean single sequence MFE -32.36
Consensus MFE -28.06
Energy contribution -28.26
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.86
Structure conservation index 0.87
SVM decision value 1.65
SVM RNA-class probability 0.970016
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051442 102 + 22407834
CAAGUAGCGGGUGACAAGCCAAGCGCCUUUGUGGCUGUCACCC--------CUUCCACCGUGCACCACCUCCUUUUUUUGGCGGAGCUGC----------CUUCAACUCCACACAUAAGU
...(((((((((((((.((((..........))))))))))))--------..(((.(((..................))).))))))))----------.................... ( -32.17)
>DroSec_CAF1 15356 102 + 1
CAAGUAGCGGGUGACAAGCCAAGCGUCUUUGUGGCUGUCACCC--------CGUCCACCGUGCACCACCCCCUUUUUUUGGCGGAGCUGC----------CUUCAACUCCACACAUAAGU
...(((((((((((((.(((..(((....))))))))))))))--------..(((.(((..................))).))))))))----------.................... ( -32.37)
>DroSim_CAF1 9639 102 + 1
CAAGUAGCGGGUGACAAGCCAAGCGCCUUUGUGGCUGUCACCC--------CGUCCACCGUGCACCACCCCCUUUUUUUGGCGGAGCUGC----------CUUCAACUCCACACAUAAGU
...(((((((((((((.((((..........))))))))))))--------..(((.(((..................))).))))))))----------.................... ( -32.17)
>DroEre_CAF1 15241 109 + 1
CAAGUAGCGGGUGACAAGCCAAGCGCCUUUGUGGCUGUCACCCCCUCCACCCGUCCACCGAGCACCACCCCCUUU-UUUGGCGAUGCUGC----------CUGCAACUCCACACAUAAGU
((.(((((((((((((.((((..........))))))))))))........((.(((..(((.........))).-..)))))..)))))----------.))................. ( -29.90)
>DroYak_CAF1 13282 112 + 1
CAAGUAGCGGGUGACAAGCCAAGCGCCUUUGUGGCUGUCACCC--------CGUCUACCGAGCACCACCCCCUUUUUUUGGCGGUGCUGCCUUUCACUGCCUUCAACUCCACACAUAAGU
...(((((((((((((.((((..........))))))))).))--------)).))))...(((.((((.((.......)).)))).))).............................. ( -35.20)
>consensus
CAAGUAGCGGGUGACAAGCCAAGCGCCUUUGUGGCUGUCACCC________CGUCCACCGUGCACCACCCCCUUUUUUUGGCGGAGCUGC__________CUUCAACUCCACACAUAAGU
...(((((((((((((.((((..........))))))))))))........................((.((.......)).)).))))).............................. (-28.06 = -28.26 +   0.20)

alignment

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secondary structure

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Window 2

Location 17,051,442 – 17,051,544
Length 102
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.74
Mean single sequence MFE -42.48
Consensus MFE -37.18
Energy contribution -37.46
Covariance contribution 0.28
Combinations/Pair 1.06
Mean z-score -2.42
Structure conservation index 0.88
SVM decision value 3.05
SVM RNA-class probability 0.998255
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051442 102 - 22407834
ACUUAUGUGUGGAGUUGAAG----------GCAGCUCCGCCAAAAAAAGGAGGUGGUGCACGGUGGAAG--------GGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUG
......(((((((((((...----------.)))))))((((...........))))))))(((((...--------((((((((((((..........)))).)))))))).))))).. ( -40.90)
>DroSec_CAF1 15356 102 - 1
ACUUAUGUGUGGAGUUGAAG----------GCAGCUCCGCCAAAAAAAGGGGGUGGUGCACGGUGGACG--------GGGUGACAGCCACAAAGACGCUUGGCUUGUCACCCGCUACUUG
.....((.(((((((((...----------.)))))))))))........(((((((...((.....))--------((((((((((((..........)))).))))))))))))))). ( -42.80)
>DroSim_CAF1 9639 102 - 1
ACUUAUGUGUGGAGUUGAAG----------GCAGCUCCGCCAAAAAAAGGGGGUGGUGCACGGUGGACG--------GGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUG
.....((.(((((((((...----------.)))))))))))........(((((((...((.....))--------((((((((((((..........)))).))))))))))))))). ( -42.80)
>DroEre_CAF1 15241 109 - 1
ACUUAUGUGUGGAGUUGCAG----------GCAGCAUCGCCAAA-AAAGGGGGUGGUGCUCGGUGGACGGGUGGAGGGGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUG
...........((((.((.(----------(((.((((.((...-...)).)))).)))).((..(((((((.(((..(....).(((.....))).))).)))))))..)))).)))). ( -43.40)
>DroYak_CAF1 13282 112 - 1
ACUUAUGUGUGGAGUUGAAGGCAGUGAAAGGCAGCACCGCCAAAAAAAGGGGGUGGUGCUCGGUAGACG--------GGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUG
.....(((.(........).)))......((((.((((.((.......)).)))).)))).(((((...--------((((((((((((..........)))).)))))))).))))).. ( -42.50)
>consensus
ACUUAUGUGUGGAGUUGAAG__________GCAGCUCCGCCAAAAAAAGGGGGUGGUGCACGGUGGACG________GGGUGACAGCCACAAAGGCGCUUGGCUUGUCACCCGCUACUUG
.....((.(((((((((..............)))))))))))........(((((((...((.....))........((((((((((((..........)))).))))))))))))))). (-37.18 = -37.46 +   0.28)

alignment

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secondary structure

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Window 3

Location 17,051,482 – 17,051,584
Length 102
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.01
Mean single sequence MFE -38.22
Consensus MFE -30.50
Energy contribution -31.34
Covariance contribution 0.84
Combinations/Pair 1.09
Mean z-score -1.90
Structure conservation index 0.80
SVM decision value 1.00
SVM RNA-class probability 0.897200
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051482 102 - 22407834
AAGCAACUUUGUUGCAGUCUCUGUGGCGCCAUGGAAGUGCACUUAUGUGUGGAGUUGAAG----------GCAGCUCCGCCAAAAAAAGGAGGUGGUGCACGGUGGAAG--------GGG
..(((((...)))))..((((((((.((((((..(((....))).((.(((((((((...----------.)))))))))))..........))))))))))).)))..--------... ( -36.30)
>DroSec_CAF1 15396 102 - 1
AAGCAACUUUGUUGCAGUCUCUGUGGCCCCAUGGAAGUGCACUUAUGUGUGGAGUUGAAG----------GCAGCUCCGCCAAAAAAAGGGGGUGGUGCACGGUGGACG--------GGG
..(((((...))))).((((((((((((((....(((....))).((.(((((((((...----------.))))))))))).......)))))....))))).)))).--------... ( -39.00)
>DroSim_CAF1 9679 102 - 1
AAGCAACUUUGUUGCAGUCUCUGUGGCCCCAUGGAAGUGCACUUAUGUGUGGAGUUGAAG----------GCAGCUCCGCCAAAAAAAGGGGGUGGUGCACGGUGGACG--------GGG
..(((((...))))).((((((((((((((....(((....))).((.(((((((((...----------.))))))))))).......)))))....))))).)))).--------... ( -39.00)
>DroEre_CAF1 15281 109 - 1
AAGCAACUUUGUUGCACUCUCUGAGGCCCCAUGGAAGUGCACUUAUGUGUGGAGUUGCAG----------GCAGCAUCGCCAAA-AAAGGGGGUGGUGCUCGGUGGACGGGUGGAGGGGG
..(((((...))))).((((((...(((((.((.((.(.(((......))).).)).))(----------((......)))...-....)))))...(((((.....))))))))))).. ( -40.00)
>DroYak_CAF1 13322 112 - 1
AAGCAACUUUGUUGCAGUCUCUGUGGCCCCAUGGAAGUGCACUUAUGUGUGGAGUUGAAGGCAGUGAAAGGCAGCACCGCCAAAAAAAGGGGGUGGUGCUCGGUAGACG--------GGG
..((...((..((((..((((((((....))))))...((((....))))......))..))))..))..))(((((((((..........)))))))))((.....))--------... ( -36.80)
>consensus
AAGCAACUUUGUUGCAGUCUCUGUGGCCCCAUGGAAGUGCACUUAUGUGUGGAGUUGAAG__________GCAGCUCCGCCAAAAAAAGGGGGUGGUGCACGGUGGACG________GGG
..(((((...))))).((((((((((((((....(((....))).((.(((((((((..............))))))))))).......)))))....))))).))))............ (-30.50 = -31.34 +   0.84)

alignment

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secondary structure

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Window 4

Location 17,051,584 – 17,051,704
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.25
Mean single sequence MFE -47.14
Consensus MFE -42.38
Energy contribution -42.46
Covariance contribution 0.08
Combinations/Pair 1.10
Mean z-score -3.34
Structure conservation index 0.90
SVM decision value 4.70
SVM RNA-class probability 0.999940
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051584 120 + 22407834
UUGCCACGAAUGCGACAGUGGUUGCAAAUUCGAGCUCAGUUGCUCGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGGUGCUUAAGGUGCCAGCUGAAGAGCUUAUUUCAUAAGGAGGUU
..(((.((((((((((....))))))..))))(((((.(((.(((....))))))((((((.(((.(((((((((....)))))))))))).))))))))))).............))). ( -48.50)
>DroSec_CAF1 15498 120 + 1
UUGCCACGAAUGCGACAGUGGUUGCAAAUUCGAGCUCAGUUGCUUGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCAGCUGAAGAGCUUAUUCCAUAAGGAGGUU
..(((.((((((((((....))))))..))))(((((.(((.(((....))))))((((((.(((.(((((((((....)))))))))))).)))))))))))...(((....)))))). ( -47.70)
>DroSim_CAF1 9781 120 + 1
UUGCCACGAAUGCGACAGUGGUUGCAAAUUCGAGCUCAGUUGCUCUCUGGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCAGCUGAAGAGCUUAUUUCAUAAGGAGGUU
..(((.((((((((((....))))))..))))(((((.(((.(((....))))))((((((.(((.(((((((((....)))))))))))).))))))))))).............))). ( -48.10)
>DroEre_CAF1 15390 119 + 1
UUAUCACGAAUGCGACAGUGGUUGCAAAUUUGAGCUCAGUUGCGCGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCGGCUGAAGAGCGUAUUUCAUAAGG-GGUU
......((((((((((....))))))..))))(((((...((.(((((......(((((((((((.(((((((((....)))))))))))))))))))))))))....))....)-)))) ( -48.40)
>DroYak_CAF1 13434 120 + 1
UUACCACGAAUGCGACAGUGGUUGCAAAUUCGAGCUCAGUUGCGCGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCGGCUUAAGAGGAUAUUUCAAAAGGAGGUU
..(((.((((((((((....))))))..))))(((.(......).))).((((.(((((((((((.(((((((((....))))))))))))))))...))))...)))).......))). ( -43.00)
>consensus
UUGCCACGAAUGCGACAGUGGUUGCAAAUUCGAGCUCAGUUGCUCGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCAGCUGAAGAGCUUAUUUCAUAAGGAGGUU
..(((.((((((((((....))))))..)))).((((.(((.(((....))))))((((((.(((.(((((((((....)))))))))))).))))))))))..............))). (-42.38 = -42.46 +   0.08)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,051,584 – 17,051,704
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 94.25
Mean single sequence MFE -34.94
Consensus MFE -30.82
Energy contribution -31.46
Covariance contribution 0.64
Combinations/Pair 1.08
Mean z-score -2.31
Structure conservation index 0.88
SVM decision value 3.13
SVM RNA-class probability 0.998536
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051584 120 - 22407834
AACCUCCUUAUGAAAUAAGCUCUUCAGCUGGCACCUUAAGCACCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCGAGCAACUGAGCUCGAAUUUGCAACCACUGUCGCAUUCGUGGCAA
..................((.((((((((((.(((((.((......)).)))))..))))))))))........(((((......))))).....))......((((((....)))))). ( -38.00)
>DroSec_CAF1 15498 120 - 1
AACCUCCUUAUGGAAUAAGCUCUUCAGCUGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCAAGCAACUGAGCUCGAAUUUGCAACCACUGUCGCAUUCGUGGCAA
..........(((....((..((((((((((.(((((.((......)).)))))..))))))))))..))...((((((......)))......)))..))).((((((....)))))). ( -35.70)
>DroSim_CAF1 9781 120 - 1
AACCUCCUUAUGAAAUAAGCUCUUCAGCUGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCCAGAGAGCAACUGAGCUCGAAUUUGCAACCACUGUCGCAUUCGUGGCAA
..........((((((.((((((((((((((.(((((.((......)).)))))..)))))))))(((((....)))))....)))))...)))).)).....((((((....)))))). ( -37.80)
>DroEre_CAF1 15390 119 - 1
AACC-CCUUAUGAAAUACGCUCUUCAGCCGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCGCGCAACUGAGCUCAAAUUUGCAACCACUGUCGCAUUCGUGAUAA
....-..(((((((....(((((((((((((.(((((.((......)).)))))..))))))))))......)))(((((.....((........))......)).))).)))))))... ( -36.30)
>DroYak_CAF1 13434 120 - 1
AACCUCCUUUUGAAAUAUCCUCUUAAGCCGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCGCGCAACUGAGCUCGAAUUUGCAACCACUGUCGCAUUCGUGGUAA
........(((((........(((.((((((.(((((.((......)).)))))..)))))).))).........((........)))))))......(((((..........))))).. ( -26.90)
>consensus
AACCUCCUUAUGAAAUAAGCUCUUCAGCUGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCGAGCAACUGAGCUCGAAUUUGCAACCACUGUCGCAUUCGUGGCAA
.......(((((((....(((((((((((((.(((((.((......)).)))))..)))))))))((((......))))....)))).......(((.((....)).))))))))))... (-30.82 = -31.46 +   0.64)

alignment

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secondary structure

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dotplot

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Window 6

Location 17,051,624 – 17,051,742
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 88.11
Mean single sequence MFE -41.06
Consensus MFE -33.06
Energy contribution -33.62
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -3.50
Structure conservation index 0.81
SVM decision value 3.27
SVM RNA-class probability 0.998900
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051624 118 + 22407834
UGCUCGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGGUGCUUAAGGUGCCAGCUGAAGAGCUUAUUUCAUAAGGAGGUUUUU--UUCUCGAGUGCCUUAUGUAUAAUAUAUAAAUAGUU
.((((....(((..(((((((.(((.(((((((((....)))))))))))).)))))))..)))..........((((.....--.))))))))...(((((((...)))))))...... ( -39.30)
>DroSec_CAF1 15538 120 + 1
UGCUUGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCAGCUGAAGAGCUUAUUCCAUAAGGAGGUUUUUUUUUCUCGAGUGCCCUAUGUAUAAUAUAUAAAUAGUU
.((..(((.((((((((((((.(((.(((((((((....)))))))))))).)))))))......((((....))))........))))).))))).((((.((((...)))).)))).. ( -39.50)
>DroSim_CAF1 9821 118 + 1
UGCUCUCUGGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCAGCUGAAGAGCUUAUUUCAUAAGGAGGUUUUUUUUUCUCGAGU--CCUAUGUAUAAUAUAUAAAUAGUU
.((((....(((..(((((((.(((.(((((((((....)))))))))))).)))))))..)))..........((((........))))))))--.((((.((((...)))).)))).. ( -38.10)
>DroEre_CAF1 15430 117 + 1
UGCGCGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCGGCUGAAGAGCGUAUUUCAUAAGG-GGUUUUU--UUCUCGAGGGUCCUGUAUGUAAUAUAAAUAGGUUU
...(((((......(((((((((((.(((((((((....)))))))))))))))))))))))))(((.((((.((-((..(((--.....)))..)))).)))).)))............ ( -46.70)
>DroYak_CAF1 13474 118 + 1
UGCGCGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCGGCUUAAGAGGAUAUUUCAAAAGGAGGUUUUU--UUCUUGAGUGUCCUAUAUAAAAUUUAAAAAGGCUU
.....(((......(((.(((((((.(((((((((....)))))))))))))))).)))(((((((((....((((((....)--))))))))))))))................))).. ( -41.70)
>consensus
UGCUCGCUAGAGAACUUCAGCCGGUGACCUUGAGUGGCUGCUUAAGGUGCCAGCUGAAGAGCUUAUUUCAUAAGGAGGUUUUU__UUCUCGAGUGCCCUAUGUAUAAUAUAUAAAUAGUU
....((((.((((((((((((.(((.(((((((((....)))))))))))).)))))))......((((....))))........))))).))))......................... (-33.06 = -33.62 +   0.56)

alignment

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secondary structure

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dotplot

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Window 7

Location 17,051,624 – 17,051,742
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 88.11
Mean single sequence MFE -30.71
Consensus MFE -24.38
Energy contribution -24.54
Covariance contribution 0.16
Combinations/Pair 1.04
Mean z-score -3.28
Structure conservation index 0.79
SVM decision value 2.93
SVM RNA-class probability 0.997782
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17051624 118 - 22407834
AACUAUUUAUAUAUUAUACAUAAGGCACUCGAGAA--AAAAACCUCCUUAUGAAAUAAGCUCUUCAGCUGGCACCUUAAGCACCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCGAGCA
..................(((((((..........--........)))))))......(((((((((((((.(((((.((......)).)))))..)))))))))((......)))))). ( -31.77)
>DroSec_CAF1 15538 120 - 1
AACUAUUUAUAUAUUAUACAUAGGGCACUCGAGAAAAAAAAACCUCCUUAUGGAAUAAGCUCUUCAGCUGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCAAGCA
..((((.((((...)))).)))).((.((.(((((.........(((....))).......((((((((((.(((((.((......)).)))))..))))))))))))))).))...)). ( -33.80)
>DroSim_CAF1 9821 118 - 1
AACUAUUUAUAUAUUAUACAUAGG--ACUCGAGAAAAAAAAACCUCCUUAUGAAAUAAGCUCUUCAGCUGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCCAGAGAGCA
..((((.((((...)))).)))).--.((((((((...........(((((...)))))..((((((((((.(((((.((......)).)))))..)))))))))))))))..))).... ( -31.10)
>DroEre_CAF1 15430 117 - 1
AAACCUAUUUAUAUUACAUACAGGACCCUCGAGAA--AAAAACC-CCUUAUGAAAUACGCUCUUCAGCCGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCGCGCA
...........((((.((((.(((...........--.......-))))))).))))((((((((((((((.(((((.((......)).)))))..))))))))))......)))).... ( -31.37)
>DroYak_CAF1 13474 118 - 1
AAGCCUUUUUAAAUUUUAUAUAGGACACUCAAGAA--AAAAACCUCCUUUUGAAAUAUCCUCUUAAGCCGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCGCGCA
..((((.....((((((....((((...((((((.--..........))))))....))))....((((((.(((((.((......)).)))))..))))))))))))....)).))... ( -25.50)
>consensus
AACUAUUUAUAUAUUAUACAUAGGACACUCGAGAA__AAAAACCUCCUUAUGAAAUAAGCUCUUCAGCUGGCACCUUAAGCAGCCACUCAAGGUCACCGGCUGAAGUUCUCUAGCGAGCA
...........................((.(((((...........(....).........((((((((((.(((((.((......)).)))))..))))))))))))))).))...... (-24.38 = -24.54 +   0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:25 2006