Locus 326

Sequence ID 3L_DroMel_CAF1
Location 947,913 – 948,146
Length 233
Max. P 0.813104
window487 window488 window489 window490

overview

Window 7

Location 947,913 – 948,016
Length 103
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 86.91
Mean single sequence MFE -35.36
Consensus MFE -28.67
Energy contribution -29.39
Covariance contribution 0.72
Combinations/Pair 1.07
Mean z-score -2.14
Structure conservation index 0.81
SVM decision value 0.37
SVM RNA-class probability 0.709840
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 947913 103 + 23771897
AUGUGUCGAAUGUUACGCUAAGGAGUAACUUUGACAUUUACCAUUCAAGGCUUAUGAGUGCCACCGCAGUG----------------GAAUGGUGCUGCGGAUCCUGAAAGGGG-AAGGA
..((((((((.(((((........)))))))))))))...((.(((..(((........))).(((((((.----------------.......)))))))..(((....))))-)))). ( -37.70)
>DroSec_CAF1 82941 103 + 1
AUGUGUCGAAUGUUACGCUAAGGAGUAACUUUGACAUUUACCAUUCAAGGCUUAUGAGUGCCACCGCAAUG----------------GAAUGGGGCUGCGGAUCCUGAAAGGGG-AAGGA
..((((((((.(((((........)))))))))))))...((.(((..(((........))).(((((...----------------.........)))))..(((....))))-)))). ( -31.80)
>DroSim_CAF1 74856 103 + 1
AUGUGUCGAAUGUUACGCUAAGGAGUAACUUUGACAUUUACCAUUCAAGGCUUAUGAGUGCCACCGCAGUG----------------GAAUGGGGCUGCGGAUCCUGAAAGGGG-AAGGA
..((((((((.(((((........)))))))))))))...((.(((..(((........))).(((((((.----------------.......)))))))..(((....))))-)))). ( -37.30)
>DroEre_CAF1 84898 104 + 1
AUGUGUCGAAUGUUACGCUAAGGAGUAACUUUGACAUUUACCAUUCAAGGCUUAUGAGUGCCACCGCAGUG----------------GAAUGGGGCGGCGGGUCCUGAAAGGGGAAAUGA
..((((((((.(((((........)))))))))))))...((.((((.((((......((((.((.((...----------------...)).)).)))))))).)))).))........ ( -33.30)
>DroYak_CAF1 87126 111 + 1
AUGUGUCGAAUGUUACGCUAAGGAGUAACUUUGACAUUUACCAUUCAAGGCUUAUGAGUGCCACCGCAGUGAA---------AGGGGGAAGGGGGCUGCGGAUCCUGAAAGGGGCAAGGA
..((((((((.(((((........)))))))))))))...((......(((........))).(((((((...---------............))))))).((((....))))...)). ( -34.96)
>DroAna_CAF1 89363 120 + 1
AUGUGUCGAAUGUUACGCUAAGGAGUAACUUUGACAUUUACCAUUCAAGGCUUAUGAGUGCCACCGCAGAGUGGGCCGCAUAGAGACGAGGCGUGGUGCAGGACGUGGGACGUGGGAGGA
..((((((((.(((((........)))))))))))))...((.((((...((((((.(..(((((((...))))(((.(........).))).)))..)....))))))...)))).)). ( -37.10)
>consensus
AUGUGUCGAAUGUUACGCUAAGGAGUAACUUUGACAUUUACCAUUCAAGGCUUAUGAGUGCCACCGCAGUG________________GAAUGGGGCUGCGGAUCCUGAAAGGGG_AAGGA
..((((((((.(((((........)))))))))))))...((.((((.(((........))).(((((((........................)))))))....)))).))........ (-28.67 = -29.39 +   0.72)

alignment

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secondary structure

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Window 8

Location 948,016 – 948,123
Length 107
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.10
Mean single sequence MFE -39.78
Consensus MFE -34.69
Energy contribution -35.22
Covariance contribution 0.53
Combinations/Pair 1.06
Mean z-score -1.48
Structure conservation index 0.87
SVM decision value 0.17
SVM RNA-class probability 0.617313
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 948016 107 - 23771897
----GUCCUCAUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCAUAAGGCAAUUGCCCGGGCGGGCA---------ACACGGUA
----((((......(((((((((..(((((..(....)....)))))..)))))))))(((.(((((((....))).((....)).....)))).))))))).---------........ ( -40.80)
>DroSec_CAF1 83044 107 - 1
----GUCCUCUUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCAUAAGGCAAUUGCCCGGGCGGGCA---------ACACGGUA
----((((......(((((((((..(((((..(....)....)))))..)))))))))(((.(((((((....))).((....)).....)))).))))))).---------........ ( -40.80)
>DroSim_CAF1 74959 107 - 1
----GUCCUCUUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCAUAAGGCAAUUGCCCGGGCGGGCA---------ACACGGUA
----((((......(((((((((..(((((..(....)....)))))..)))))))))(((.(((((((....))).((....)).....)))).))))))).---------........ ( -40.80)
>DroEre_CAF1 85002 102 - 1
----GUCCU-----CUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCAUAAGGCAAUUGCCCGGGCGGCUU---------GCACGGUA
----(((..-----(((((((((..(((((..(....)....)))))..)))))))))(((.(((((((....))).((....)).....)))).))))))..---------........ ( -36.40)
>DroYak_CAF1 87237 116 - 1
----GUCCUCUUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCAUAAGGCAAUUGCCCAGGCGGGUUGCAAGCCGUGCACGGUA
----(((((....((((((((((..(((((..(....)....)))))..))))))))))..)))))((((........))))..((((((((....)).))))))..((((....)))). ( -42.80)
>DroAna_CAF1 89483 109 - 1
UCACCUUCUUGUCCCUGCCCAUGUCCGUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCAUAAGGCAAUUGCCCGGGCGGGUU---------AC--AGCA
........((((.(((((((..............((((((.(((......)))))))))...(((((((....))).((....)).....)))))))))))..---------))--)).. ( -37.10)
>consensus
____GUCCUCUUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCAUAAGGCAAUUGCCCGGGCGGGCA_________ACACGGUA
....((((......(((((((((..(((((..(....)....)))))..)))))))))(((.(((((((....))).((....)).....)))).))))))).................. (-34.69 = -35.22 +   0.53)

alignment

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secondary structure

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dotplot

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Window 9

Location 948,047 – 948,146
Length 99
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 81.81
Mean single sequence MFE -33.65
Consensus MFE -23.52
Energy contribution -23.88
Covariance contribution 0.36
Combinations/Pair 1.05
Mean z-score -1.48
Structure conservation index 0.70
SVM decision value 0.12
SVM RNA-class probability 0.591943
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 948047 99 + 23771897
UGGUUAUUUUCAUAGCCCUGGCCUGGCCACAAAACUGCGAGCCAAGUGUGACAGCGACAUGGCCAGGGAUGAGGAC----------CCAGCAG-AGGACCU------GGUA----ACUUG
.((((((((((((..(((((((((((((.((....)).).)))).((((.......))))))))))))))))))).----------((((...-.....))------))))----))).. ( -35.00)
>DroSec_CAF1 83075 99 + 1
UGGUUAUUUUCAUAGCCCUGGCCUGGCCACAAAACUGCGAGCCAAGUGUGACAGCGACAUGGCCAGGGAAGAGGAC----------CAGGCAA-AGGACCU------GGUA----ACUUG
.((((((((((....(((((((((((((.((....)).).)))).((((.......))))))))))))..)))))(----------(((((..-..).)))------))))----))).. ( -37.00)
>DroSim_CAF1 74990 99 + 1
UGGUUAUUUUCAUAGCCCUGGCCUGGCCACAAAACUGCGAGCCAAGUGUGACAGCGACAUGGCCAGGGAAGAGGAC----------CAGGCAA-AGGACCU------GGUA----ACUUG
.((((((((((....(((((((((((((.((....)).).)))).((((.......))))))))))))..)))))(----------(((((..-..).)))------))))----))).. ( -37.00)
>DroEre_CAF1 85033 82 + 1
UGGUUAUUUUCAUAGCCCUGGCCUGGCCACAAAACUGCGAGCCAAGUGUGACAGCGACAUGGCCAG-----AGGAC----------CUGGCA-----------------------ACUUG
.((((((....))))))(((((((((((.((....)).).)))).((((.......))))))))))-----.....----------..(...-----------------------.)... ( -23.90)
>DroYak_CAF1 87277 104 + 1
UGGUUAUUUUCAUAGCCCUGGCCUGGCCACAAAACUGCGAGCCAAGUGUGACAGCGACAUGGCCAGGGAAGAGGAC----------CAAGCAAGAGGACCA------GCCAAAGGACUUG
(((((..........(((((((((((((.((....)).).)))).((((.......))))))))))))....((.(----------(........)).)))------))))......... ( -34.10)
>DroAna_CAF1 89512 118 + 1
UGGUUAUUUUCAUAGCCCUGGCCUGGCCACAAAACUGCGAGCCAAGUGUGACACGGACAUGGGCAGGGACAAGAAGGUGAAGAUGGCUGGCAAGGAGACGAAAAGGAGGC--AGGACUUG
.((((((((((((..(((((.(((((((.((....)).).)))).((((.......)))))).)))))........)))))))))))).....(....)......(((..--....))). ( -34.90)
>consensus
UGGUUAUUUUCAUAGCCCUGGCCUGGCCACAAAACUGCGAGCCAAGUGUGACAGCGACAUGGCCAGGGAAGAGGAC__________CAGGCAA_AGGACCU______GGUA____ACUUG
........(((....(((((((((((((.((....)).).)))).((((.......))))))))))))....)))............................................. (-23.52 = -23.88 +   0.36)

alignment

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secondary structure

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dotplot

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Window 0

Location 948,047 – 948,146
Length 99
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 81.81
Mean single sequence MFE -33.32
Consensus MFE -24.19
Energy contribution -24.88
Covariance contribution 0.69
Combinations/Pair 1.04
Mean z-score -2.03
Structure conservation index 0.73
SVM decision value 0.65
SVM RNA-class probability 0.813104
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 948047 99 - 23771897
CAAGU----UACC------AGGUCCU-CUGCUGG----------GUCCUCAUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCA
...((----((..------.((.(((-.....))----------).))((((((((((((.(((.......)))..((((.(((......)))))))))))))))..))))...)))).. ( -35.00)
>DroSec_CAF1 83075 99 - 1
CAAGU----UACC------AGGUCCU-UUGCCUG----------GUCCUCUUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCA
.(((.----.(((------((((...-..)))))----------))...)))((((((((.(((.......)))..((((.(((......))))))))))))))).(((....))).... ( -37.10)
>DroSim_CAF1 74990 99 - 1
CAAGU----UACC------AGGUCCU-UUGCCUG----------GUCCUCUUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCA
.(((.----.(((------((((...-..)))))----------))...)))((((((((.(((.......)))..((((.(((......))))))))))))))).(((....))).... ( -37.10)
>DroEre_CAF1 85033 82 - 1
CAAGU-----------------------UGCCAG----------GUCCU-----CUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCA
...((-----------------------(..(((----------(((((-----(((((((((..(((((..(....)....)))))..)))))))))...)))))).))..)))..... ( -27.20)
>DroYak_CAF1 87277 104 - 1
CAAGUCCUUUGGC------UGGUCCUCUUGCUUG----------GUCCUCUUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCA
..((((((..(((------.((.((........)----------).))......(((((((((..(((((..(....)....)))))..))))))))))))))))))............. ( -37.00)
>DroAna_CAF1 89512 118 - 1
CAAGUCCU--GCCUCCUUUUCGUCUCCUUGCCAGCCAUCUUCACCUUCUUGUCCCUGCCCAUGUCCGUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCA
..((((((--((((((....((.....((((.(((((....(((...(.((........)).)...))).......))))).))))...)).))..))).)))))))............. ( -26.50)
>consensus
CAAGU____UACC______AGGUCCU_UUGCCUG__________GUCCUCUUCCCUGGCCAUGUCGCUGUCACACUUGGCUCGCAGUUUUGUGGCCAGGCCAGGGCUAUGAAAAUAACCA
............................................(((((....((((((((((..(((((..(....)....)))))..))))))))))..)))))(((....))).... (-24.19 = -24.88 +   0.69)

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 09:39:20 2006