Locus 6074

Sequence ID 2R_DroMel_CAF1
Location 19,115,863 – 19,116,063
Length 200
Max. P 0.940190
window9730 window9731 window9732 window9733

overview

Window 0

Location 19,115,863 – 19,115,983
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.00
Mean single sequence MFE -51.42
Consensus MFE -23.41
Energy contribution -23.91
Covariance contribution 0.50
Combinations/Pair 1.21
Mean z-score -2.11
Structure conservation index 0.46
SVM decision value 0.12
SVM RNA-class probability 0.594840
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19115863 120 - 20766785
CUGGGCGCCUUCAUCGGCUACGGCCUGCUCAUGGUCCUGCUUCCCUCGCCCACACUUACGGUGGGCGCUGGGCUCUGCGUGACCUUGCCCCACACCAGCGUAACCACGGGCCAGGCCCUC
..(((((((......)))...((((((.....((((.(((..(((.(((((((.......)))))))..)))....))).))))..((.........)).......))))))..)))).. ( -51.80)
>DroPse_CAF1 7822 120 - 1
CUGGGCGCCUUCAUUGGCUACGGCCUGCUGAAGGUUCUCCUGCCCGAGGACACCCUCAGUGCAGGCGUUGGACUGUGUGUGACCUUACCCCACAACAGCAUUAGCCAUGCUCAGGCCUUU
(((((((((((((..(((....)))...)))))))...((((((.((((....)))).).))))).(((((.((((.((((.........))))))))..)))))...))))))...... ( -47.50)
>DroEre_CAF1 4974 120 - 1
CUGGGCGCCUUCAUCGGCUACGGCCUGCUCAUGGUCCUGCUGCCCCCGCCCACCCUCACCGUGGGCGCCGGACUCUGCGUGACCUUGCCCCAUGCCACCGUGAACGUGGGCCAGGCCUUC
..(((((((......)))...((((..((((((((.......((..(((((((.......)))))))..)).....(((((.........))))).)))))))..)..))))..)))).. ( -50.30)
>DroYak_CAF1 5341 120 - 1
CUGGGCGCCUUCAUCGGCUACGGCCUGCUCAUGGUCCUGCUCCCCGGGCCCACACUCACCGUGGGCGCCGGGCUCUGCGUGACCUUGCCCCACGCCACCGUGACCCCGGCCCAGGCCUUC
(((((((((......)))..(((...((....((((.(((..(((((((((((.......)))))).)))))....))).))))..))..((((....))))...)))))))))...... ( -57.20)
>DroMoj_CAF1 6744 120 - 1
CUGGGCGGCUUCAUUGGCUACGGCCUGCUGAUGGCCUUGCUGCCCCCAUCCACGCUGGAUGUGCCCAACGGCCUGUGCGUGACCCUGCCCCACUCCGAGGUCAACAAUCUGCAGGCCUUC
.((((((((..((..((((((((....))).))))).))..)))..(((((.....))))).)))))..(((((((...(((((.((........)).))))).......)))))))... ( -50.50)
>DroPer_CAF1 7834 120 - 1
CUGGGCGCCUUCAUUGGCUACGGCCUGCUGAAGGUUCUCCUGCCCGAGGACACCCUCAGUGCGGGCGUUGGCCUGUGUGUGACCUUGCCCCACAGCAGCAUUAGCCAUGCUCAGGCCUUU
..(((.(((((((..(((....)))...))))))).)))..((((((((....)))).....))))...((((((.(((((....(((......)))((....))))))).))))))... ( -51.20)
>consensus
CUGGGCGCCUUCAUCGGCUACGGCCUGCUCAUGGUCCUGCUGCCCGCGCCCACCCUCACUGUGGGCGCCGGACUCUGCGUGACCUUGCCCCACACCAGCGUGAACCAGGCCCAGGCCUUC
..(((((...((((.(((....))).((....(((((...(((((.................)))))..)))))..))))))...))))).............................. (-23.41 = -23.91 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 19,115,903 – 19,116,023
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.56
Mean single sequence MFE -51.35
Consensus MFE -22.42
Energy contribution -23.53
Covariance contribution 1.12
Combinations/Pair 1.32
Mean z-score -2.71
Structure conservation index 0.44
SVM decision value 1.31
SVM RNA-class probability 0.940190
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19115903 120 + 20766785
ACGCAGAGCCCAGCGCCCACCGUAAGUGUGGGCGAGGGAAGCAGGACCAUGAGCAGGCCGUAGCCGAUGAAGGCGCCCAGCAUCUGGGCGGCGAAGUAGGCAAAUGCCAUGCGCAGGGUG
..((....(((..((((((((....).))))))).)))..))...(((.((.(((.(((...(((......)))((((((...)))))))))......(((....))).))).)).))). ( -58.00)
>DroVir_CAF1 176 120 + 1
ACGCAAAGGCCAUUGGGCACAUUUAUUGUUGAGUAUGGCAGCAAGGCCUUGAGUAGGCCGUAGCCAAUGAAGGCACCUAACAUUUGGCCAACAAAGUAGACAAAGGCCAUGGGCAAAGUG
..((...((((.((((((((.....((((((.......))))))(((((.....))))))).)))..((..(((............)))..)).......))).))))....))...... ( -36.20)
>DroPse_CAF1 7862 120 + 1
ACACACAGUCCAACGCCUGCACUGAGGGUGUCCUCGGGCAGGAGAACCUUCAGCAGGCCGUAGCCAAUGAAGGCGCCCAGCAUCUGGGCCACACAAUAGACAAAGGCCAUGGGAAGUGUG
.(((((..((((.(.(((((.((((((....))))))))))).)...........((((...(((......)))((((((...))))))...............)))).))))..))))) ( -53.70)
>DroEre_CAF1 5014 120 + 1
ACGCAGAGUCCGGCGCCCACGGUGAGGGUGGGCGGGGGCAGCAGGACCAUGAGCAGGCCGUAGCCGAUGAAGGCGCCCAGCAUCUGGGCGGCAAAGUAGGCGAAGGCCAUGCGCAGGGUG
..((...((((..(((((((.......))))))).)))).))...(((.((.(((((((...(((.((...(.(((((((...))))))).)...)).)))...)))).))).)).))). ( -59.80)
>DroMoj_CAF1 6784 120 + 1
ACGCACAGGCCGUUGGGCACAUCCAGCGUGGAUGGGGGCAGCAAGGCCAUCAGCAGGCCGUAGCCAAUGAAGCCGCCCAGCAUCUGGCCGACAAAGUAGACGAAGGCCAUAGGCAGCGAG
.(((....((((((((((.(((((.....)))))..(((.((..((((.......)))))).))).........)))))))...(((((..(.........)..)))))..))).))).. ( -50.90)
>DroPer_CAF1 7874 120 + 1
ACACACAGGCCAACGCCCGCACUGAGGGUGUCCUCGGGCAGGAGAACCUUCAGCAGGCCGUAGCCAAUGAAGGCGCCCAGCAUCUGGGCCACACAGUAGACAAAGGCCAUGGGAAGUGUG
.(((((.(((....)))(.((((((((((.((((.....))))..))))))))..((((...(((......)))((((((...))))))...............)))).)).)..))))) ( -49.50)
>consensus
ACGCACAGGCCAACGCCCACACUGAGGGUGGACGAGGGCAGCAGGACCAUCAGCAGGCCGUAGCCAAUGAAGGCGCCCAGCAUCUGGGCGACAAAGUAGACAAAGGCCAUGGGCAGGGUG
.(((...(.((.((((((.......))))))....)).)................((((...(((......)))((((((...))))))...............)))).........))) (-22.42 = -23.53 +   1.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,115,903 – 19,116,023
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.56
Mean single sequence MFE -48.75
Consensus MFE -24.42
Energy contribution -24.73
Covariance contribution 0.31
Combinations/Pair 1.42
Mean z-score -2.40
Structure conservation index 0.50
SVM decision value 1.17
SVM RNA-class probability 0.925905
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19115903 120 - 20766785
CACCCUGCGCAUGGCAUUUGCCUACUUCGCCGCCCAGAUGCUGGGCGCCUUCAUCGGCUACGGCCUGCUCAUGGUCCUGCUUCCCUCGCCCACACUUACGGUGGGCGCUGGGCUCUGCGU
.(((.((.(((.(((....)))......(((((((((...))))))(((......)))...))).))).)).)))...((..(((.(((((((.......)))))))..)))....)).. ( -51.60)
>DroVir_CAF1 176 120 - 1
CACUUUGCCCAUGGCCUUUGUCUACUUUGUUGGCCAAAUGUUAGGUGCCUUCAUUGGCUACGGCCUACUCAAGGCCUUGCUGCCAUACUCAACAAUAAAUGUGCCCAAUGGCCUUUGCGU
......((....((((.(((..((((((((((.....(((.((((((((......))).))(((((.....)))))...))).)))......))))))).)))..))).))))...)).. ( -36.50)
>DroPse_CAF1 7862 120 - 1
CACACUUCCCAUGGCCUUUGUCUAUUGUGUGGCCCAGAUGCUGGGCGCCUUCAUUGGCUACGGCCUGCUGAAGGUUCUCCUGCCCGAGGACACCCUCAGUGCAGGCGUUGGACUGUGUGU
(((((.(((.(((..................((((((...))))))(((((((..(((....)))...)))))))...((((((.((((....)))).).)))))))).)))..))))). ( -51.70)
>DroEre_CAF1 5014 120 - 1
CACCCUGCGCAUGGCCUUCGCCUACUUUGCCGCCCAGAUGCUGGGCGCCUUCAUCGGCUACGGCCUGCUCAUGGUCCUGCUGCCCCCGCCCACCCUCACCGUGGGCGCCGGACUCUGCGU
.(((.((.(((.((((...(((......(.(((((((...))))))).)......)))...))))))).)).)))...((.(((..(((((((.......)))))))..)).)...)).. ( -50.50)
>DroMoj_CAF1 6784 120 - 1
CUCGCUGCCUAUGGCCUUCGUCUACUUUGUCGGCCAGAUGCUGGGCGGCUUCAUUGGCUACGGCCUGCUGAUGGCCUUGCUGCCCCCAUCCACGCUGGAUGUGCCCAACGGCCUGUGCGU
..(((.(((..(((((..((.......))..)))))...(.((((((((..((..((((((((....))).))))).))..)))..(((((.....))))).))))).))))....))). ( -48.30)
>DroPer_CAF1 7874 120 - 1
CACACUUCCCAUGGCCUUUGUCUACUGUGUGGCCCAGAUGCUGGGCGCCUUCAUUGGCUACGGCCUGCUGAAGGUUCUCCUGCCCGAGGACACCCUCAGUGCGGGCGUUGGCCUGUGUGU
(((((.......((((..(((((((((.(((((((((...))))))(((((((..(((....)))...)))))))..((((.....)))))))...))))..)))))..)))).))))). ( -53.90)
>consensus
CACACUGCCCAUGGCCUUUGUCUACUUUGUCGCCCAGAUGCUGGGCGCCUUCAUUGGCUACGGCCUGCUCAAGGUCCUGCUGCCCCAGCCCACCCUCAAUGUGGGCGAUGGCCUGUGCGU
.........((..(((..(((((((...((.((((((...)))))).........(((....))).))....(((......)))................)))))))..)).)..))... (-24.42 = -24.73 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 19,115,943 – 19,116,063
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.28
Mean single sequence MFE -43.06
Consensus MFE -25.71
Energy contribution -26.10
Covariance contribution 0.39
Combinations/Pair 1.31
Mean z-score -1.59
Structure conservation index 0.60
SVM decision value -0.05
SVM RNA-class probability 0.510385
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19115943 120 - 20766785
AUCCCGCCGUGACCGUGGCCGCCUACAUCUACGAGAUGGUCACCCUGCGCAUGGCAUUUGCCUACUUCGCCGCCCAGAUGCUGGGCGCCUUCAUCGGCUACGGCCUGCUCAUGGUCCUGC
.....((((((((((((((((....((((.....))))........(((...(((....))).....)))(((((((...))))))).......))))))))).....)))))))..... ( -46.10)
>DroVir_CAF1 216 120 - 1
AUCCCGCCGUUACCGUGGCGGCCUUUAUCUAUGAGCUGGUCACUUUGCCCAUGGCCUUUGUCUACUUUGUUGGCCAAAUGUUAGGUGCCUUCAUUGGCUACGGCCUACUCAAGGCCUUGC
.....((((......))))((((((.....(((((..((.(((((.((...(((((...............)))))...)).)))))))))))).(((....))).....)))))).... ( -39.36)
>DroPse_CAF1 7902 120 - 1
ACCCAGCGGUAACUGUUGCCGCCUACAUCUACGAGUUGGUCACACUUCCCAUGGCCUUUGUCUAUUGUGUGGCCCAGAUGCUGGGCGCCUUCAUUGGCUACGGCCUGCUGAAGGUUCUCC
.(((((((....(((..(((((..(((...(((((..(((((.........))))))))))....)))))))).))).))))))).(((((((..(((....)))...)))))))..... ( -45.40)
>DroGri_CAF1 7211 120 - 1
AUCCCGCCGUCACAGUGGCUGCCUAUAUCUAUGAUUUGGUCACGUUGCCAAUGGCACUUGUAUAUUUUGCGGGCCAAAUGCUUGGCGCUUUCAUUGGUUAUGGCCUGCUGAAGGCAUUGU
.....(((....(((((((.(((...(((...)))..)))..(((.((((((((.....(((.....)))(.(((((....))))).)..)))))))).)))))).))))..)))..... ( -36.70)
>DroMoj_CAF1 6824 120 - 1
AUCCCGCAGUCACGGUGGCGGCCUACGUCUAUGAGCUGGUCUCGCUGCCUAUGGCCUUCGUCUACUUUGUCGGCCAGAUGCUGGGCGGCUUCAUUGGCUACGGCCUGCUGAUGGCCUUGC
..((((((.((..((..((((((..(........)..)))..)))..))..(((((..((.......))..)))))))))).))).(((((((..(((....)))...))).)))).... ( -45.60)
>DroPer_CAF1 7914 120 - 1
ACCCAGCGGUAACUGUUGCCGCCUACAUCUACGAGUUGGUCACACUUCCCAUGGCCUUUGUCUACUGUGUGGCCCAGAUGCUGGGCGCCUUCAUUGGCUACGGCCUGCUGAAGGUUCUCC
.((((((((((.....)))).................((((((((.......(((....)))....)))))))).....)))))).(((((((..(((....)))...)))))))..... ( -45.20)
>consensus
AUCCCGCCGUAACCGUGGCCGCCUACAUCUACGAGUUGGUCACACUGCCCAUGGCCUUUGUCUACUUUGUGGCCCAGAUGCUGGGCGCCUUCAUUGGCUACGGCCUGCUGAAGGCCCUGC
.....((((......)))).((((((((((.......((........))...(((....))).............))))).)))))(((((((..(((....)))...)))))))..... (-25.71 = -26.10 +   0.39)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:09 2006