Locus 3710

Sequence ID X_DroMel_CAF1
Location 9,883,290 – 9,883,429
Length 139
Max. P 0.926299
window6075 window6076 window6077

overview

Window 5

Location 9,883,290 – 9,883,407
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 77.83
Mean single sequence MFE -34.45
Consensus MFE -21.59
Energy contribution -21.03
Covariance contribution -0.55
Combinations/Pair 1.27
Mean z-score -2.02
Structure conservation index 0.63
SVM decision value 1.17
SVM RNA-class probability 0.926299
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9883290 117 - 22224390
UAGGGUUUCCUCUCCUGAUCCGACCAAAUUUGCCCCCGGGUGACCUACUUUGACCCGGGGGUUUUCAAUAAAAAAUGACCGAGCUCGGCAUUGAUUUCCUUGGCCUGCGCCAUAGCC
.((((..((......................((((((((((.(.......).))))))))))...........((((.(((....)))))))))..))))((((....))))..... ( -36.90)
>DroVir_CAF1 14470 117 - 1
AAAUGUUUCCUCAGCAUUUUCCGUCAAGUUAGCCCCCGGGUGGCCUAAACUGACCCGGGGGUUUUCAAUAAAAAAUGACUCAGUUCAGAAUUGAUUUCGCGUGCCUGCUCCAUAGCC
.............((((.....((((((..(((((((((((((......)).)))))))))))..).........(((......)))...))))).....))))..(((....))). ( -31.50)
>DroGri_CAF1 25253 107 - 1
----------UCAGGUGAUCCGAUCAAUUUUGCCCCCGGGUGACCUACGCUGACCCGGGGGUUUUCAAUAAAAAAUGACUUAAUUCGGAAUUGAUUUCACGUGCCUGUUCCAUAGCC
----------.((((((....((((((((((((((((((((.(.......).))))))))))..(((........)))........)))))))))).....)))))).......... ( -35.50)
>DroMoj_CAF1 32446 117 - 1
AAUUGCAUUCUCAGCCUGCUCCUCUACUUUUGCCCCCGGGUGACCUACACUGACCCGGGGGUUUUCAAUAAAAAAUGACUCAAUUCAGAGUUGAUUUCGCGUGCCUGCUCCAUCGCU
.............((.(((............((((((((((.(.......).))))))))))..............(((((......)))))......))).))..((......)). ( -31.50)
>DroAna_CAF1 83152 117 - 1
UAUAGUCUCCUCUCCUGAUCCGACUAAUUUUGCCCCCGGGUGACCUACUUUGACCCGGGGGUUUUCAAUAAAAAAUGACCGAGCUCGGCAUUAAUUUCUCUAGCCUGCUCCAUUGCC
..(((((...((....))...))))).....((((((((((.(.......).))))))))))...........((((...((((..(((.............))).))))))))... ( -35.12)
>DroPer_CAF1 16093 117 - 1
CAAUGUCUCCUCACCAGAUCCGACUAGUUUUGCCCCCGGGUGUCCUACUGUGACCCGGGGGUUUCCAAUAAAAAAUGACCGAGUUCGGCAUUGAUCUCCUUGGCCUGCUCCAUGGCU
...............(((((...........((((((((((...........))))))))))...........((((.(((....))))))))))))....((((........)))) ( -36.20)
>consensus
AAAUGUCUCCUCACCUGAUCCGACCAAUUUUGCCCCCGGGUGACCUACUCUGACCCGGGGGUUUUCAAUAAAAAAUGACCGAGUUCGGAAUUGAUUUCCCGUGCCUGCUCCAUAGCC
...............................((((((((((.(.......).))))))))))................((......))..................((......)). (-21.59 = -21.03 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 9,883,330 – 9,883,429
Length 99
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 84.22
Mean single sequence MFE -32.25
Consensus MFE -22.54
Energy contribution -22.32
Covariance contribution -0.22
Combinations/Pair 1.12
Mean z-score -1.91
Structure conservation index 0.70
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9883330 99 + 22224390
CAUUUUUUAUUGAAAACCCCCGGGUCAAAGUAGGUCACCCGGGGGCAAAUUUGGUCGGAUCAGGAGAGGAAACCCUAGAUGAU---------GAUGAAUUAACCGCUG
................(((((((((...........))))))))).....((.((((.((((((...(....)))).)))..)---------))).)).......... ( -27.10)
>DroPse_CAF1 11015 108 + 1
CAUUUUUUAUUGAAAACCCCCGGGUCACAGUAGGACACCCGGGGGCAAAACUAGUCGGAUCAGGUGAGGAGACAUUGGAUGACAACGAUGACGAAGAGCUAACCGCUC
..(((.((((((....(((((((((..(....)...)))))))))........((((..((((....(....).)))).))))..)))))).)))((((.....)))) ( -33.90)
>DroSec_CAF1 14679 99 + 1
CAUUUUUUAUUGAAAACCCCCGGGUCAAAGUAGGUCACCCGGGGGCAAAUUUGGUCGGAUCAGGAGAGGAAACCCUUGAUGAU---------GAUGAAAUAACCGCUG
................(((((((((...........)))))))))...((((.((((.((((((.(.(....))))))))..)---------))).))))........ ( -32.60)
>DroYak_CAF1 7044 105 + 1
CAUUUUUUAUUGAAAACCCCCGGGUCAAAGUAGGUCACCCGGGGGCAAAGUUGGUCGGAUCAGGAGAGGAAACCCUAGAUGAUGAUGAU---GAUGAAAUAACCGCUG
....(((((((.....(((((((((...........)))))))))........((((.((((..((.(....).))...))))..))))---)))))))......... ( -30.60)
>DroAna_CAF1 83192 99 + 1
CAUUUUUUAUUGAAAACCCCCGGGUCAAAGUAGGUCACCCGGGGGCAAAAUUAGUCGGAUCAGGAGAGGAGACUAUAGACGAU---------GAAGAAAUCACUGGUG
..((((((((((....(((((((((...........)))))))))......(((((...((....))...)))))....))))---------)))))).......... ( -32.30)
>DroPer_CAF1 16133 108 + 1
CAUUUUUUAUUGGAAACCCCCGGGUCACAGUAGGACACCCGGGGGCAAAACUAGUCGGAUCUGGUGAGGAGACAUUGGAUGACAACGAUGACGAAGAGCUAACCGCUC
..(((.((((((....(((((((((..(....)...)))))))))........(((..(((..(((......)))..))))))..)))))).)))((((.....)))) ( -37.00)
>consensus
CAUUUUUUAUUGAAAACCCCCGGGUCAAAGUAGGUCACCCGGGGGCAAAAUUAGUCGGAUCAGGAGAGGAAACCCUAGAUGAU_________GAAGAAAUAACCGCUG
................(((((((((...........))))))))).......((.(((.((....))(....).............................))))). (-22.54 = -22.32 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 9,883,330 – 9,883,429
Length 99
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 84.22
Mean single sequence MFE -28.18
Consensus MFE -23.32
Energy contribution -23.23
Covariance contribution -0.08
Combinations/Pair 1.12
Mean z-score -1.67
Structure conservation index 0.83
SVM decision value 0.24
SVM RNA-class probability 0.650513
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9883330 99 - 22224390
CAGCGGUUAAUUCAUC---------AUCAUCUAGGGUUUCCUCUCCUGAUCCGACCAAAUUUGCCCCCGGGUGACCUACUUUGACCCGGGGGUUUUCAAUAAAAAAUG
....((((.....(((---------(......(((....)))....))))..))))......((((((((((.(.......).))))))))))............... ( -26.80)
>DroPse_CAF1 11015 108 - 1
GAGCGGUUAGCUCUUCGUCAUCGUUGUCAUCCAAUGUCUCCUCACCUGAUCCGACUAGUUUUGCCCCCGGGUGUCCUACUGUGACCCGGGGGUUUUCAAUAAAAAAUG
((((.....))))...(((..(((((.....))))).....((....))...)))..(....((((((((((...........))))))))))...)........... ( -30.80)
>DroSec_CAF1 14679 99 - 1
CAGCGGUUAUUUCAUC---------AUCAUCAAGGGUUUCCUCUCCUGAUCCGACCAAAUUUGCCCCCGGGUGACCUACUUUGACCCGGGGGUUUUCAAUAAAAAAUG
....((((........---------...((((.(((......))).))))..))))......((((((((((.(.......).))))))))))............... ( -27.22)
>DroYak_CAF1 7044 105 - 1
CAGCGGUUAUUUCAUC---AUCAUCAUCAUCUAGGGUUUCCUCUCCUGAUCCGACCAACUUUGCCCCCGGGUGACCUACUUUGACCCGGGGGUUUUCAAUAAAAAAUG
....((((...(((..---......(((......))).........)))...))))......((((((((((.(.......).))))))))))............... ( -25.93)
>DroAna_CAF1 83192 99 - 1
CACCAGUGAUUUCUUC---------AUCGUCUAUAGUCUCCUCUCCUGAUCCGACUAAUUUUGCCCCCGGGUGACCUACUUUGACCCGGGGGUUUUCAAUAAAAAAUG
.....((((.....))---------))......(((((...((....))...))))).....((((((((((.(.......).))))))))))............... ( -27.40)
>DroPer_CAF1 16133 108 - 1
GAGCGGUUAGCUCUUCGUCAUCGUUGUCAUCCAAUGUCUCCUCACCAGAUCCGACUAGUUUUGCCCCCGGGUGUCCUACUGUGACCCGGGGGUUUCCAAUAAAAAAUG
((((.....))))...(((..(((((.....)))))(((.......)))...))).......((((((((((...........))))))))))............... ( -30.90)
>consensus
CAGCGGUUAUUUCAUC_________AUCAUCUAGGGUCUCCUCUCCUGAUCCGACCAAUUUUGCCCCCGGGUGACCUACUUUGACCCGGGGGUUUUCAAUAAAAAAUG
..................................((((...((....))...))))......((((((((((...........))))))))))............... (-23.32 = -23.23 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:15 2006