Locus 4795

Sequence ID 2R_DroMel_CAF1
Location 15,761,364 – 15,761,723
Length 359
Max. P 0.999678
window7701 window7702 window7703 window7704 window7705 window7706

overview

Window 1

Location 15,761,364 – 15,761,484
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 93.33
Mean single sequence MFE -48.42
Consensus MFE -44.38
Energy contribution -43.58
Covariance contribution -0.80
Combinations/Pair 1.16
Mean z-score -1.28
Structure conservation index 0.92
SVM decision value 0.69
SVM RNA-class probability 0.824613
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15761364 120 - 20766785
ACGUGACUGAGGCUGCUGCCUCGGUGACCAUUACCGCUCAAUCCGAAAGCUUUGUGGAGGUAUCGCCCACGGUGCAGAGCUCCUCGGUGGAGGUGCUGGAACUUUCGGAACGUAAGAGGG
..((.((((((((....)))))))).)).....((......(((((((((.((((((.(......))))))).))..(((.((((....)))).))).....))))))).(....).)). ( -47.70)
>DroSec_CAF1 9839 120 - 1
AUGUGACUGAGGCGGCUACUUCGGUAACAAUUACUGCUCAAUCCGAAAGCUUUGUGGAGGUAUCGCCGACGGUGCAGAGCUCCUCGGUGGAGGUGCUAGAACUUUCGGAACGUAAGAGGG
.(((.(((((((......))))))).))).......(((..((((((((.(((......((((((....))))))..(((.((((....)))).)))))).)))))))).(....).))) ( -38.80)
>DroSim_CAF1 10717 120 - 1
ACGUGACCGAGGCUGCUGCCUCGGUGACCAUUACCGCUCAAUCCGAGAGCUUUGUGGAGGUAUCGCCGACGGUGCAGAGCUCCUCGGUGGAGGUGCUGGAACUUUCGGAACGUAAGAGGG
..((.((((((((....)))))))).)).....((.(((...((((((((((((((..((.....))..)...)))))))).)))))(((((((......)))))))........))))) ( -51.40)
>DroEre_CAF1 10414 120 - 1
ACGUGACUGAGGCGGCUGCCUCGGUGACCAUUACCGCUCAAUCUGAGAGCUUUGUGGAGGUAUCGCCCACGGUGCAGAGCUCCUCGGUGGAGGUGCUGGAGCUUUCGGAACGUAAGAGGG
..((.((((((((....)))))))).)).....((......((((((((((((......((((((....))))))..(((.((((....)))).))))))))))))))).(....).)). ( -50.90)
>DroYak_CAF1 10553 120 - 1
AUGUGACUGAGGCGGCUGCCUCGGUGACCAUUACCGCUCAGUCUGAGAGCUUUGUGGAGGUCUCGCCCACGGUGCAGAGCUCCUCGGCGGAGGUGCUGGAGCUUUCGGAGCGUAAGAGGG
..((.((((((((....)))))))).)).....((.(((.((((((((((((...((((.(((((((...)))).))).)))).(((((....)))))))))))))))).)....))))) ( -53.30)
>consensus
ACGUGACUGAGGCGGCUGCCUCGGUGACCAUUACCGCUCAAUCCGAGAGCUUUGUGGAGGUAUCGCCCACGGUGCAGAGCUCCUCGGUGGAGGUGCUGGAACUUUCGGAACGUAAGAGGG
..((.((((((((....)))))))).)).....((......((((((((.(((......((((((....))))))..(((.((((....)))).))).))))))))))).(....).)). (-44.38 = -43.58 +  -0.80)

alignment

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secondary structure

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dotplot

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Window 2

Location 15,761,444 – 15,761,564
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.50
Mean single sequence MFE -49.46
Consensus MFE -46.14
Energy contribution -45.74
Covariance contribution -0.40
Combinations/Pair 1.15
Mean z-score -2.28
Structure conservation index 0.93
SVM decision value 3.88
SVM RNA-class probability 0.999678
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15761444 120 - 20766785
ACUGACCUUCGUGGGUGCGGAGGGCAGCGAGCGGAACUUAAACACUGGCCUGAUAGUACUGGUUCACCAUCCCAUGGACUACGUGACUGAGGCUGCUGCCUCGGUGACCAUUACCGCUCA
.(((.(((((((....))))))).))).((((((.........((((......))))..((((.((((....((((.....))))...(((((....)))))))))))))...)))))). ( -50.60)
>DroSec_CAF1 9919 120 - 1
ACUGACCUUCGUGGGUGCGGAGGGCAGCGAGCGGAACUUAAACACCGGCCUGAUAGUACUGGUCCACCAUCCCAUGGACUAUGUGACUGAGGCGGCUACUUCGGUAACAAUUACUGCUCA
.(((.(((((((....))))))).))).((((((..........(((.(((..(((((((((((((........))))))).)).)))))))))).(((....))).......)))))). ( -45.10)
>DroSim_CAF1 10797 120 - 1
ACUGACCUUCGUGGGUGCGGAGGGCAGCGAGCGUAACUUAAACACCGGCCUGAUAGUCCUGGUCCACCAUCCCAUGGACUACGUGACCGAGGCUGCUGCCUCGGUGACCAUUACCGCUCA
.(((.(((((((....))))))).))).((((((((.................(((((((((.........))).)))))).((.((((((((....)))))))).))..))).))))). ( -50.60)
>DroEre_CAF1 10494 120 - 1
UCUGACCUUCGUGGGUGCGGAGGGCAGCGAGCGGAACCUAAACACCGGCCUGAUUGUCCUGGUCCACCACCCCAUGGACUACGUGACUGAGGCGGCUGCCUCGGUGACCAUUACCGCUCA
.(((.(((((((....))))))).))).((((((............((.(.....).))(((((((........))))))).((.((((((((....)))))))).)).....)))))). ( -49.30)
>DroYak_CAF1 10633 120 - 1
ACUGACCUUUGUGGGUGCGGAGGGCAGUGAGCGGAAUUUAAACACUGGCCUUAUAGUGCUGGUCCACCAUCCCAUGGACUAUGUGACUGAGGCGGCUGCCUCGGUGACCAUUACCGCUCA
((((.(((((((....))))))).))))((((((........(((((......))))).(((((((........))))))).((.((((((((....)))))))).)).....)))))). ( -51.70)
>consensus
ACUGACCUUCGUGGGUGCGGAGGGCAGCGAGCGGAACUUAAACACCGGCCUGAUAGUACUGGUCCACCAUCCCAUGGACUACGUGACUGAGGCGGCUGCCUCGGUGACCAUUACCGCUCA
.(((.(((((((....))))))).))).((((((.........................(((((((........))))))).((.((((((((....)))))))).)).....)))))). (-46.14 = -45.74 +  -0.40)

alignment

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secondary structure

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dotplot

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Window 3

Location 15,761,564 – 15,761,683
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 93.61
Mean single sequence MFE -41.98
Consensus MFE -36.22
Energy contribution -37.14
Covariance contribution 0.92
Combinations/Pair 1.06
Mean z-score -1.66
Structure conservation index 0.86
SVM decision value 1.32
SVM RNA-class probability 0.941493
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15761564 119 + 20766785
CCGCCAUCCAUCCCAAAAAUGUUGGCCGAGAAGGGCACGAAGCUGGCGUUCCUGGGAUUAUAGUUGAAGGAACAACAGGGUCCCAGAUACGCAGUGGUGGGAAUGAACGAUAGGUACUC
..(((((((((((((......((((((......))).))).((((.(((..((((((((...((((......))))..))))))))..)))))))..)))).)))...))).))).... ( -41.40)
>DroSec_CAF1 10039 119 + 1
CCUCCGUCCAUGCCAAAAAUGUUAGCCGAGAAGGGCACGAAGCUGGCGUUUCUGGGAUUAUAGUUGAAGGAACAACAGGGUCCCAGGUACGCAGUGGUGGGUAUGAACGAUAGGUACUC
(((.(((.((((((..........(((......))).((..((((.(((.(((((((((...((((......))))..))))))))).)))))))..)))))))).)))..)))..... ( -45.90)
>DroSim_CAF1 10917 119 + 1
CCUCCGUCCAUGCCAAAGAUGUUGGCCGAGAAAGGCACGAAGCUGGCGUUCCUGGGAUUGUAGUUGAAGGAACAACAGGGUCCCAGGUACGCAGUUGUGGGAAUGAACGAUAGGUACUC
(((.(((.(((.(((......((((((......))).)))(((((.(((.(((((((((.(.((((......))))).))))))))).)))))))).)))..))).)))..)))..... ( -44.50)
>DroEre_CAF1 10614 119 + 1
CCGCCGUCCAUGCCAAAUAUGUUGGCCGAGAAGGGCACGAAGCUGGCGUUCCUGGGAUUAUAGUUAAAGGAGCAACAGGGACCCAGGUACGCGGUGGUUGGAAUGAACGAUAGGUACUC
(((((((((..(((((.....)))))......)))).........((((.((((((.((...(((........)))...)))))))).)))))))))...................... ( -36.50)
>DroYak_CAF1 10753 119 + 1
CCGCCGUCCAUGCCAAAGAUGUUGGCCGAGAAGGGCACGAAGCUGGCGUUCCGGGGAUUAUAGUUGAAGGAGCAACAGGGUCCCAGGUACGCAGUGGUGGGAAUGAACGAUAGGUACUC
(((((((((..(((((.....)))))......)))).....((((.(((.((.((((((...((((......))))..)))))).)).))))))))))))................... ( -41.60)
>consensus
CCGCCGUCCAUGCCAAAAAUGUUGGCCGAGAAGGGCACGAAGCUGGCGUUCCUGGGAUUAUAGUUGAAGGAACAACAGGGUCCCAGGUACGCAGUGGUGGGAAUGAACGAUAGGUACUC
((..(((.(((.((..........(((......))).((..((((.(((.(((((((((...((((......))))..))))))))).)))))))..)))).))).)))...))..... (-36.22 = -37.14 +   0.92)

alignment

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secondary structure

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dotplot

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Window 4

Location 15,761,564 – 15,761,683
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 93.61
Mean single sequence MFE -37.60
Consensus MFE -34.04
Energy contribution -34.04
Covariance contribution -0.00
Combinations/Pair 1.13
Mean z-score -2.17
Structure conservation index 0.91
SVM decision value 3.25
SVM RNA-class probability 0.998850
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15761564 119 - 20766785
GAGUACCUAUCGUUCAUUCCCACCACUGCGUAUCUGGGACCCUGUUGUUCCUUCAACUAUAAUCCCAGGAACGCCAGCUUCGUGCCCUUCUCGGCCAACAUUUUUGGGAUGGAUGGCGG
......((..(((((((.((((...((((((.(((((((....((((......)))).....))))))).))).)))....(.(((......))))........)))))))))))..)) ( -39.10)
>DroSec_CAF1 10039 119 - 1
GAGUACCUAUCGUUCAUACCCACCACUGCGUACCUGGGACCCUGUUGUUCCUUCAACUAUAAUCCCAGAAACGCCAGCUUCGUGCCCUUCUCGGCUAACAUUUUUGGCAUGGACGGAGG
.....(((.((((((((.((.....((((((..((((((....((((......)))).....))))))..))).)))......(((......)))..........)).))))))))))) ( -36.40)
>DroSim_CAF1 10917 119 - 1
GAGUACCUAUCGUUCAUUCCCACAACUGCGUACCUGGGACCCUGUUGUUCCUUCAACUACAAUCCCAGGAACGCCAGCUUCGUGCCUUUCUCGGCCAACAUCUUUGGCAUGGACGGAGG
.....(((.((((((((...(((((((((((.(((((((....((((......)))).....))))))).))).))).)).))).........(((((.....)))))))))))))))) ( -41.60)
>DroEre_CAF1 10614 119 - 1
GAGUACCUAUCGUUCAUUCCAACCACCGCGUACCUGGGUCCCUGUUGCUCCUUUAACUAUAAUCCCAGGAACGCCAGCUUCGUGCCCUUCUCGGCCAACAUAUUUGGCAUGGACGGCGG
......((..(((((((.((((.....((((.((((((.....((((......))))......)))))).)))).......(.(((......)))).......)))).)))))))..)) ( -37.40)
>DroYak_CAF1 10753 119 - 1
GAGUACCUAUCGUUCAUUCCCACCACUGCGUACCUGGGACCCUGUUGCUCCUUCAACUAUAAUCCCCGGAACGCCAGCUUCGUGCCCUUCUCGGCCAACAUCUUUGGCAUGGACGGCGG
......((..(((((((...(((..((((((.((.((((....((((......)))).....)))).)).))).)))....))).........(((((.....))))))))))))..)) ( -33.50)
>consensus
GAGUACCUAUCGUUCAUUCCCACCACUGCGUACCUGGGACCCUGUUGUUCCUUCAACUAUAAUCCCAGGAACGCCAGCUUCGUGCCCUUCUCGGCCAACAUCUUUGGCAUGGACGGCGG
......((..(((((((.((.......((((.(((((((....((((......)))).....))))))).)))).......(.(((......)))).........)).)))))))..)) (-34.04 = -34.04 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 5

Location 15,761,604 – 15,761,723
Length 119
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 95.63
Mean single sequence MFE -42.96
Consensus MFE -37.58
Energy contribution -38.26
Covariance contribution 0.68
Combinations/Pair 1.03
Mean z-score -1.33
Structure conservation index 0.87
SVM decision value 0.33
SVM RNA-class probability 0.692417
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15761604 119 + 20766785
AGCUGGCGUUCCUGGGAUUAUAGUUGAAGGAACAACAGGGUCCCAGAUACGCAGUGGUGGGAAUGAACGAUAGGUACUCGUGGCUCUGGUUGCACUGAAACUCCGUGUGGCCCCAGAAG
.((((.(((..((((((((...((((......))))..))))))))..)))))))((.(((.....((((.......))))..))).(((..(((.(.....).)))..)))))..... ( -40.70)
>DroSec_CAF1 10079 119 + 1
AGCUGGCGUUUCUGGGAUUAUAGUUGAAGGAACAACAGGGUCCCAGGUACGCAGUGGUGGGUAUGAACGAUAGGUACUCGUGGCUCUGGUUGCACUGAAACUCCGUGUGGCCCCAGAAG
..(((((((.(((((((((...((((......))))..))))))))).))))(((..(((((((.........)))))))..)))..(((..(((.(.....).)))..))).)))... ( -44.20)
>DroSim_CAF1 10957 119 + 1
AGCUGGCGUUCCUGGGAUUGUAGUUGAAGGAACAACAGGGUCCCAGGUACGCAGUUGUGGGAAUGAACGAUAGGUACUCGUGGCUCUGGUUGCACUGAAACUCCGUGUGGCCCCAGAAG
..(((((((.(((((((((.(.((((......))))).))))))))).))))(((..((((.((.........)).))))..)))..(((..(((.(.....).)))..))).)))... ( -45.80)
>DroEre_CAF1 10654 119 + 1
AGCUGGCGUUCCUGGGAUUAUAGUUAAAGGAGCAACAGGGACCCAGGUACGCGGUGGUUGGAAUGAACGAUAGGUACUCGUGGCUCUGGUUGCACUGGAACUCCGUGUGGCCCCAGAAG
..((((.((((((..(((....)))..))))))..(((((.(((..((((.(.((.(((......))).)).)))))..).)))))))((..(((.((....)))))..)).))))... ( -42.30)
>DroYak_CAF1 10793 119 + 1
AGCUGGCGUUCCGGGGAUUAUAGUUGAAGGAGCAACAGGGUCCCAGGUACGCAGUGGUGGGAAUGAACGAUAGGUACUCGUGGCUCUGGUUGCACUGGAACUCCGUGUGGCCCCAGAAG
.((((.(((.((.((((((...((((......))))..)))))).)).)))))))((.(((.....((((.......))))..))).(((..(((.((....)))))..)))))..... ( -41.80)
>consensus
AGCUGGCGUUCCUGGGAUUAUAGUUGAAGGAACAACAGGGUCCCAGGUACGCAGUGGUGGGAAUGAACGAUAGGUACUCGUGGCUCUGGUUGCACUGAAACUCCGUGUGGCCCCAGAAG
.(((.((((.(((((((((...((((......))))..))))))))).))))..............((((.......)))))))((((((..(((.(.....).)))..)))..))).. (-37.58 = -38.26 +   0.68)

alignment

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secondary structure

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dotplot

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Window 6

Location 15,761,604 – 15,761,723
Length 119
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 95.63
Mean single sequence MFE -32.62
Consensus MFE -31.82
Energy contribution -31.90
Covariance contribution 0.08
Combinations/Pair 1.10
Mean z-score -1.23
Structure conservation index 0.98
SVM decision value 0.86
SVM RNA-class probability 0.867817
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15761604 119 - 20766785
CUUCUGGGGCCACACGGAGUUUCAGUGCAACCAGAGCCACGAGUACCUAUCGUUCAUUCCCACCACUGCGUAUCUGGGACCCUGUUGUUCCUUCAACUAUAAUCCCAGGAACGCCAGCU
..(((((...(((...........)))...)))))((.((((.......))))..............((((.(((((((....((((......)))).....))))))).))))..)). ( -32.20)
>DroSec_CAF1 10079 119 - 1
CUUCUGGGGCCACACGGAGUUUCAGUGCAACCAGAGCCACGAGUACCUAUCGUUCAUACCCACCACUGCGUACCUGGGACCCUGUUGUUCCUUCAACUAUAAUCCCAGAAACGCCAGCU
..(((((...(((...........)))...)))))((.((((.......))))..............((((..((((((....((((......)))).....))))))..))))..)). ( -30.60)
>DroSim_CAF1 10957 119 - 1
CUUCUGGGGCCACACGGAGUUUCAGUGCAACCAGAGCCACGAGUACCUAUCGUUCAUUCCCACAACUGCGUACCUGGGACCCUGUUGUUCCUUCAACUACAAUCCCAGGAACGCCAGCU
..(((((...(((...........)))...)))))((.((((.......))))..............((((.(((((((....((((......)))).....))))))).))))..)). ( -34.60)
>DroEre_CAF1 10654 119 - 1
CUUCUGGGGCCACACGGAGUUCCAGUGCAACCAGAGCCACGAGUACCUAUCGUUCAUUCCAACCACCGCGUACCUGGGUCCCUGUUGCUCCUUUAACUAUAAUCCCAGGAACGCCAGCU
..(((((...(((..((....)).)))...)))))((.((((.......))))..............((((.((((((.....((((......))))......)))))).))))..)). ( -34.00)
>DroYak_CAF1 10793 119 - 1
CUUCUGGGGCCACACGGAGUUCCAGUGCAACCAGAGCCACGAGUACCUAUCGUUCAUUCCCACCACUGCGUACCUGGGACCCUGUUGCUCCUUCAACUAUAAUCCCCGGAACGCCAGCU
..(((((...(((..((....)).)))...)))))((.((((.......))))..............((((.((.((((....((((......)))).....)))).)).))))..)). ( -31.70)
>consensus
CUUCUGGGGCCACACGGAGUUUCAGUGCAACCAGAGCCACGAGUACCUAUCGUUCAUUCCCACCACUGCGUACCUGGGACCCUGUUGUUCCUUCAACUAUAAUCCCAGGAACGCCAGCU
..(((((...(((..((....)).)))...)))))((.((((.......))))..............((((.(((((((....((((......)))).....))))))).))))..)). (-31.82 = -31.90 +   0.08)

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 11:29:27 2006