Locus 7364

Sequence ID 3R_DroMel_CAF1
Location 19,523,061 – 19,523,221
Length 160
Max. P 0.683578
window11905 window11906 window11907

overview

Window 5

Location 19,523,061 – 19,523,181
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.61
Mean single sequence MFE -37.07
Consensus MFE -23.00
Energy contribution -23.17
Covariance contribution 0.17
Combinations/Pair 1.26
Mean z-score -1.94
Structure conservation index 0.62
SVM decision value 0.00
SVM RNA-class probability 0.534288
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19523061 120 + 27905053
AAUGAAAACGGUGCCCAGCUGCCACUUGUUAGGCUUUAGAUACUGGAUUAGCCAGAUGGGCAGACAGGGCUCCAGCAUGGCCAUUGUUGAGGUUGAAAACCAAAUGGCCAGCACAAUGGC
.........((.((((..(((((....(((.((((..............)))).))).)))))...)))).)).((.((((((((.....(((.....))).))))))))))........ ( -43.14)
>DroVir_CAF1 15813 120 + 1
UAUGAAAACUGUGCCCAAUUGCCAUUUAUUUGGAUGCAGAUAUUGAAUCAACCAAAUGGGCAAACACGGCUCCAGUAUGGCCAUUGUGGAAGUGGAUAGCCAAAUGGCGAUCACAAUGGC
.......((((.(((...(((((...(((((((.((............)).))))))))))))....)))..))))...((((((((((.........(((....)))..)))))))))) ( -35.00)
>DroGri_CAF1 16689 120 + 1
AAUAAAAACCGUGCCCAAUUGCCAUUUAUUUGGGUGCAAGUACUGUAUCAACCAGAUGGGCAAACACGGCUCCAAUAUGGCCAUUGUGGAUGUGGACAGCCAAAUGGCAACCACAAUGGA
........(((((.....(((((...((((((((((((.....)))))...)))))))))))).)))))...........(((((((((.((....))(((....)))..))))))))). ( -39.00)
>DroWil_CAF1 14387 120 + 1
AAUGAAAACUGUUCCCAGCUGCCACUUGUUCGGCUUGAGAUAUUGAAUUAACCAAAUGGGCAGACACGGUUCCAAUAUGGCCAUUGUUGAUGUGGAGAACCAAAUCGCCACAACAAUGGC
......((((((......(((((....(((.((.((((.........)))))).))).)))))..))))))........((((((((...(((((.((......)).))))))))))))) ( -31.60)
>DroMoj_CAF1 15096 120 + 1
UAUGAAAACGGUGCCCAAUUGCCACUUGUUCGGAUGGAGAUACUGAAUCAGCCAGAUGGGCAAACAGGGCUCCAAUAUGGCCAUUGUGGAUGUGGACAACCAAAUGGCGAUGACAAUGGC
.........((.((((..(((((.((.((((((((....)).)))))).)).......)))))...)))).))..(((.((((((.(((.((....)).))))))))).)))........ ( -35.80)
>DroAna_CAF1 16278 120 + 1
UAUGAAGACCGUUCCCAACUGCCACUUGUUAGGCUUCAGAUACUGAAUUAGCCAAAUUGGCAGACAAGGCUCUAGCAUGGCCAUGGUGGAGGUGGAGAACCAAAUGGCCAGCACAAUGGC
..........(((((((.((((((...(((.((((((((...))))...)))).)))))))))......(((((.(((....))).))))).))).))))......((((......)))) ( -37.90)
>consensus
AAUGAAAACCGUGCCCAACUGCCACUUGUUAGGCUGCAGAUACUGAAUCAACCAAAUGGGCAAACACGGCUCCAAUAUGGCCAUUGUGGAUGUGGACAACCAAAUGGCCACCACAAUGGC
..........(.(((...(((((....(((.((..................)).))).)))))....))).).......((((((((((.(((.............))).)))))))))) (-23.00 = -23.17 +   0.17)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,523,101 – 19,523,221
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.00
Mean single sequence MFE -39.64
Consensus MFE -22.85
Energy contribution -23.77
Covariance contribution 0.92
Combinations/Pair 1.26
Mean z-score -2.35
Structure conservation index 0.58
SVM decision value 0.27
SVM RNA-class probability 0.662307
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19523101 120 + 27905053
UACUGGAUUAGCCAGAUGGGCAGACAGGGCUCCAGCAUGGCCAUUGUUGAGGUUGAAAACCAAAUGGCCAGCACAAUGGCCAGGAUCAUUUUGCAUUCGAGCAGCGAUCGCCACUUGGGU
..(((((...(((...((......)).))))))))..((((((((((...((((...........))))...)))))))))).((((...((((......)))).))))(((.....))) ( -38.30)
>DroVir_CAF1 15853 120 + 1
UAUUGAAUCAACCAAAUGGGCAAACACGGCUCCAGUAUGGCCAUUGUGGAAGUGGAUAGCCAAAUGGCGAUCACAAUGGCCAAAAUCAUUUUGCAUUCAAGAAGCGCACGCCACUUAGUC
..(((((((((.....(((((.......)).)))...((((((((((((.........(((....)))..))))))))))))........))).))))))...((....))......... ( -32.80)
>DroGri_CAF1 16729 120 + 1
UACUGUAUCAACCAGAUGGGCAAACACGGCUCCAAUAUGGCCAUUGUGGAUGUGGACAGCCAAAUGGCAACCACAAUGGACAGUAUCAUUUUGGAUUCAAGGAGCGUGCCCCAUUUGGUC
..........((((((((((....((((.((((....((.(((((((((.((....))(((....)))..))))))))).))(.(((......))).)..)))))))).)))))))))). ( -47.80)
>DroWil_CAF1 14427 120 + 1
UAUUGAAUUAACCAAAUGGGCAGACACGGUUCCAAUAUGGCCAUUGUUGAUGUGGAGAACCAAAUCGCCACAACAAUGGCCAGAAUCAUUUUACAUUCUAGCAACGGGCGCCAUUUGGGU
...........((((((((((......(((((.....((((((((((...(((((.((......)).))))))))))))))))))))..........((......)))).)))))))).. ( -41.00)
>DroMoj_CAF1 15136 120 + 1
UACUGAAUCAGCCAGAUGGGCAAACAGGGCUCCAAUAUGGCCAUUGUGGAUGUGGACAACCAAAUGGCGAUGACAAUGGCCAAAAUCAUUUUGCAUUCGAGCAACGCGCGCCAUUUGGUG
..........(((((((((((......((((....(((.((((((.(((.((....)).))))))))).))).....)))).........((((......))))...)).))))))))). ( -39.70)
>DroAna_CAF1 16318 120 + 1
UACUGAAUUAGCCAAAUUGGCAGACAAGGCUCUAGCAUGGCCAUGGUGGAGGUGGAGAACCAAAUGGCCAGCACAAUGGCCAGAAUCAUUUUACACUCAAGCAGGGGUCGCCACUUCGGG
..(((((...(((.....)))......((((((.((...((....)).(((((((((.......((((((......))))))......)))))).)))..)).)))))).....))))). ( -38.22)
>consensus
UACUGAAUCAACCAAAUGGGCAAACACGGCUCCAAUAUGGCCAUUGUGGAUGUGGACAACCAAAUGGCCACCACAAUGGCCAGAAUCAUUUUGCAUUCAAGCAGCGCGCGCCACUUGGGC
...........((((...(((......(....)....((((((((((((.(((.............))).))))))))))))...........................)))..)))).. (-22.85 = -23.77 +   0.92)

alignment

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secondary structure

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dotplot

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Window 7

Location 19,523,101 – 19,523,221
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 82.00
Mean single sequence MFE -38.93
Consensus MFE -23.06
Energy contribution -24.25
Covariance contribution 1.20
Combinations/Pair 1.21
Mean z-score -2.31
Structure conservation index 0.59
SVM decision value 0.31
SVM RNA-class probability 0.683578
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19523101 120 - 27905053
ACCCAAGUGGCGAUCGCUGCUCGAAUGCAAAAUGAUCCUGGCCAUUGUGCUGGCCAUUUGGUUUUCAACCUCAACAAUGGCCAUGCUGGAGCCCUGUCUGCCCAUCUGGCUAAUCCAGUA
.....(((((((((((.(((......)))...)))))...))))))....((((((((.(((.....))).....))))))))(((((((.....(((.........)))...))))))) ( -36.60)
>DroVir_CAF1 15853 120 - 1
GACUAAGUGGCGUGCGCUUCUUGAAUGCAAAAUGAUUUUGGCCAUUGUGAUCGCCAUUUGGCUAUCCACUUCCACAAUGGCCAUACUGGAGCCGUGUUUGCCCAUUUGGUUGAUUCAAUA
((((((((((((.((((((((((....)))........(((((((((((((.(((....))).))).......))))))))))....)))).)))...)).))))))))))......... ( -38.81)
>DroGri_CAF1 16729 120 - 1
GACCAAAUGGGGCACGCUCCUUGAAUCCAAAAUGAUACUGUCCAUUGUGGUUGCCAUUUGGCUGUCCACAUCCACAAUGGCCAUAUUGGAGCCGUGUUUGCCCAUCUGGUUGAUACAGUA
(((((.(((((((((((((((((....)))...((((.((.(((((((((..(((....)))((....)).))))))))).)))))))))).)))))...))))).)))))......... ( -45.00)
>DroWil_CAF1 14427 120 - 1
ACCCAAAUGGCGCCCGUUGCUAGAAUGUAAAAUGAUUCUGGCCAUUGUUGUGGCGAUUUGGUUCUCCACAUCAACAAUGGCCAUAUUGGAACCGUGUCUGCCCAUUUGGUUAAUUCAAUA
..((((((((.((...((((......)))).(((.((((((((((((((((((.((......)).)))))...))))))))).....)))).)))....))))))))))........... ( -40.30)
>DroMoj_CAF1 15136 120 - 1
CACCAAAUGGCGCGCGUUGCUCGAAUGCAAAAUGAUUUUGGCCAUUGUCAUCGCCAUUUGGUUGUCCACAUCCACAAUGGCCAUAUUGGAGCCCUGUUUGCCCAUCUGGCUGAUUCAGUA
(((((.((((.(((((..((((.((((...........((((((((((....(((....)))((....))...)))))))))))))).))))..)))..)))))).))).))........ ( -35.80)
>DroAna_CAF1 16318 120 - 1
CCCGAAGUGGCGACCCCUGCUUGAGUGUAAAAUGAUUCUGGCCAUUGUGCUGGCCAUUUGGUUCUCCACCUCCACCAUGGCCAUGCUAGAGCCUUGUCUGCCAAUUUGGCUAAUUCAGUA
.(((((.(((((((....((((((((........))))(((((((.(((..((.....(((....)))))..))).))))))).....))))...))).)))).)))))........... ( -37.10)
>consensus
AACCAAAUGGCGCCCGCUGCUUGAAUGCAAAAUGAUUCUGGCCAUUGUGAUGGCCAUUUGGUUCUCCACAUCCACAAUGGCCAUACUGGAGCCGUGUCUGCCCAUCUGGCUAAUUCAGUA
..(((.((((((..((..((((.((((...........(((((((((((...(((....)))..........))))))))))))))).))))..))..)))).)).)))........... (-23.06 = -24.25 +   1.20)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:07 2006