Locus 5941

Sequence ID 2L_DroMel_CAF1
Location 16,765,428 – 16,765,565
Length 137
Max. P 0.954850
window9441 window9442 window9443

overview

Window 1

Location 16,765,428 – 16,765,548
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 94.89
Mean single sequence MFE -29.00
Consensus MFE -24.70
Energy contribution -24.32
Covariance contribution -0.39
Combinations/Pair 1.08
Mean z-score -2.35
Structure conservation index 0.85
SVM decision value 1.45
SVM RNA-class probability 0.954850
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16765428 120 + 22407834
CCCGAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUGAUCUACGUAAGUAAUUGCCGAUC
...............(((.((((.((((((......))))))))))........((((((.(((........)))))))))............)))((((...((((....)))).)))) ( -27.70)
>DroVir_CAF1 35754 120 + 1
UCCGAAAUACGAAAAAGCUGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGGCAGAGAUAUUACAACAAGCUCAUCUAUGUAAGUAAUUGCCUUAC
..........((...((((((((.((((((......))))))))))..(..((((((.((........))..))))))..)...........))))..))...((((....))))..... ( -29.00)
>DroGri_CAF1 33344 120 + 1
ACCGAAAUACGAAAAAGCUGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGGCAGAGAUACUACAACAAGCUCAUCUAUGUAAGUAAUUGCCGUAC
.......((((....((((((((.((((((......))))))))))..(..((((((.((........))..))))))..)...........)))).......((((....)))))))). ( -31.70)
>DroWil_CAF1 46153 120 + 1
UCCAAAAUACGAAAAAGCCGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUCAUCUAUGUAAGUAAUUGUCAUAC
..........((...(((.((((.((((((......))))))))))........((((((.(((........)))))))))............)))..))(((((((....))).)))). ( -26.20)
>DroMoj_CAF1 35529 120 + 1
ACCGAAAUACGAAAAAGCUGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGGCAGAGAUACUACCACAAGCUCAUCUAUGUAAGUAAUUGCCGUAC
.......((((....((((((((.((((((......))))))))))..(..((((((.((........))..))))))..)...........)))).......((((....)))))))). ( -31.70)
>DroPer_CAF1 32197 120 + 1
UCCAAAAUACGAAAAAGCCGAGGAUAUGUCCAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACCACAAGCUCAUCUAUGUAAGUAAUUGCCGUAC
.......((((....(((.((((.((((((......))))))))))........((((((.(((........)))))))))............))).......((((....)))))))). ( -27.70)
>consensus
UCCGAAAUACGAAAAAGCCGAGGAUAUGUCUAACUUGACAUACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUCAUCUAUGUAAGUAAUUGCCGUAC
.......((((....(((.((((.((((((......))))))))))........((((((.(((........)))))))))............)))......)))).............. (-24.70 = -24.32 +  -0.39)

alignment

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secondary structure

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dotplot

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Window 2

Location 16,765,468 – 16,765,565
Length 97
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 80.19
Mean single sequence MFE -23.65
Consensus MFE -21.38
Energy contribution -21.30
Covariance contribution -0.08
Combinations/Pair 1.14
Mean z-score -1.83
Structure conservation index 0.90
SVM decision value 1.10
SVM RNA-class probability 0.915381
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16765468 97 + 22407834
UACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUGAUCUACGUAAGUAAUUGCCGAUCAAGGGUGGCACA----------------------C-AAGU
((((((........((((((.(((........)))))))))..............(((((...((((....)))).))))))))))).....----------------------.-.... ( -23.10)
>DroGri_CAF1 33384 106 + 1
UACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGGCAGAGAUACUACAACAAGCUCAUCUAUGUAAGUAAUUGCCGUACCGGUAUGGCAAUAGUAUUAAAAUCC--------------C
...........((((((.((........))..))))))..(((((((..((..((........))..))..((((((((....))))))))))))))).......--------------. ( -25.90)
>DroWil_CAF1 46193 98 + 1
UACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUCAUCUAUGUAAGUAAUUGUCAUACCGGUAUGACAAU----------------------CUAUAU
...((((..((((.((((((.(((........)))))))))...((......))..))))....))))..(((((((((....)))))))))----------------------...... ( -21.80)
>DroMoj_CAF1 35569 110 + 1
UACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGGCAGAGAUACUACCACAAGCUCAUCUAUGUAAGUAAUUGCCGUACCGGUAUGGCAAUAUCAAAGAA---------AAAAA-AAAU
...((((....((((((.((........))..))))))(((.............))).......))))..(((((((((....))))))))).........---------.....-.... ( -24.02)
>DroAna_CAF1 31010 106 + 1
UACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUCAUCUACGUAAGUAAUUGCCGAUCCAGGAUGGCAAAGCCC---------CCCAA----A-AAAA
..............((((((.(((........)))))))))............(((....(((....))).(((((.(((...)))))))))))..---------.....----.-.... ( -21.30)
>DroPer_CAF1 32237 106 + 1
UACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACCACAAGCUCAUCUAUGUAAGUAAUUGCCGUACCGGUAUGGCAAUAUCG---------UCUUU----A-AAGA
.......(((((..((((((.(((........))))))))).((((...(((((.....)).))).))))(((((((((....)))))))))))))---------)....----.-.... ( -25.80)
>consensus
UACCUUAACGAUGCCUCUGUGCUCCAUAACUUGAGACAGAGAUACUACAACAAGCUCAUCUAUGUAAGUAAUUGCCGUACCGGUAUGGCAAUA_C___________________A_AAAU
...((((..((((.((((((.(((........)))))))))...((......))..))))....))))..(((((((((....)))))))))............................ (-21.38 = -21.30 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 3

Location 16,765,468 – 16,765,565
Length 97
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.19
Mean single sequence MFE -26.88
Consensus MFE -19.81
Energy contribution -20.20
Covariance contribution 0.39
Combinations/Pair 1.04
Mean z-score -1.08
Structure conservation index 0.74
SVM decision value -0.01
SVM RNA-class probability 0.530538
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16765468 97 - 22407834
ACUU-G----------------------UGUGCCACCCUUGAUCGGCAAUUACUUACGUAGAUCAGCUUGUUGUAGUAUCUCUGUCUCAAGUUAUGGAGCACAGAGGCAUCGUUAAGGUA
....-.----------------------........(((((((..((.(((((..(((.((.....))))).)))))..(((((((((........))).))))))))...))))))).. ( -23.60)
>DroGri_CAF1 33384 106 - 1
G--------------GGAUUUUAAUACUAUUGCCAUACCGGUACGGCAAUUACUUACAUAGAUGAGCUUGUUGUAGUAUCUCUGCCUCAAGUUAUGGAGCACAGAGGCAUCGUUAAGGUA
.--------------..((((((((.....((((.....(((((.(((((..((((......))))...))))).)))))((((.(((........)))..))))))))..)))))))). ( -24.90)
>DroWil_CAF1 46193 98 - 1
AUAUAG----------------------AUUGUCAUACCGGUAUGACAAUUACUUACAUAGAUGAGCUUGUUGUAGUAUCUCUGUCUCAAGUUAUGGAGCACAGAGGCAUCGUUAAGGUA
.....(----------------------(((((((((....)))))))))).((((....((((.(((......))).((((((((((........))).)))))))))))..))))... ( -28.80)
>DroMoj_CAF1 35569 110 - 1
AUUU-UUUUU---------UUCUUUGAUAUUGCCAUACCGGUACGGCAAUUACUUACAUAGAUGAGCUUGUGGUAGUAUCUCUGCCUCAAGUUAUGGAGCACAGAGGCAUCGUUAAGGUA
....-.....---------..(((((((((((((.((....)).))))))..........((((((((((.(((((.....))))).)))))).((.....))....))))))))))).. ( -28.20)
>DroAna_CAF1 31010 106 - 1
UUUU-U----UUGGG---------GGGCUUUGCCAUCCUGGAUCGGCAAUUACUUACGUAGAUGAGCUUGUUGUAGUAUCUCUGUCUCAAGUUAUGGAGCACAGAGGCAUCGUUAAGGUA
....-(----(..((---------((((...))).)))..))..........((((....((((.(((......))).((((((((((........))).)))))))))))..))))... ( -27.10)
>DroPer_CAF1 32237 106 - 1
UCUU-U----AAAGA---------CGAUAUUGCCAUACCGGUACGGCAAUUACUUACAUAGAUGAGCUUGUGGUAGUAUCUCUGUCUCAAGUUAUGGAGCACAGAGGCAUCGUUAAGGUA
....-.----...((---------((((((((((.((....)).))))))((((..(((((......)))))..))))((((((((((........))).))))))).))))))...... ( -28.70)
>consensus
AUUU_U___________________G_UAUUGCCAUACCGGUACGGCAAUUACUUACAUAGAUGAGCUUGUUGUAGUAUCUCUGUCUCAAGUUAUGGAGCACAGAGGCAUCGUUAAGGUA
.............................(((((..........)))))...((((....((((.(((......))).((((((((((........))).)))))))))))..))))... (-19.81 = -20.20 +   0.39)

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 11:57:06 2006