Locus 495

Sequence ID 3L_DroMel_CAF1
Location 1,395,187 – 1,395,327
Length 140
Max. P 0.974453
window742 window743 window744

overview

Window 2

Location 1,395,187 – 1,395,287
Length 100
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 74.00
Mean single sequence MFE -33.88
Consensus MFE -17.96
Energy contribution -17.88
Covariance contribution -0.08
Combinations/Pair 1.24
Mean z-score -2.23
Structure conservation index 0.53
SVM decision value 1.73
SVM RNA-class probability 0.974453
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1395187 100 + 23771897
ACAGGAUCGCCUGAAUCACGAGCAUAAGA--------ACACGGAGCAUCAUCGUCCAGAUUUGCAAUCCAAGCCGAAUGUGAUCAUCCUGGGCAUUGAUUCCACAUCC
.((((....))))................--------....(((..((((..((((((..(..((.((......)).))..).....))))))..)))))))...... ( -23.00)
>DroSec_CAF1 50126 100 + 1
ACAGGAUCGCCUGAAUCACGGGCAUAAGA--------GUCCGGAGGAUCAUCGGCCAGAUUUGGAGUCCAAGCCGAAUGUGAUCAUCCUGGGCAUUGAUUCCAUAUCC
...((((((((((.....)))))......--------(((((((.((((((((((..(((.....)))...)))))...))))).))).))))...)))))....... ( -36.30)
>DroSim_CAF1 47780 100 + 1
ACAGGAUCGCCUGAAUCACGGGCAUAAGA--------GUCCGGAGGAUCAUCGUCCAGAUUUGGAGUCCAAGCCCAAUGUGAUCAUCCUGGGCAUUGAUUCCACAUCC
.((((....))))..((.(((((......--------)))))))((((....)))).(((.(((((((...((((((((....)))..)))))...))))))).))). ( -37.00)
>DroEre_CAF1 51835 88 + 1
GCAGGAUCGCCUGAAGAA---A-----------------CCAGAGGAUCCUCCCCCAGAUCUGGAGUCCAAGCCGAAUGUGAUCAUCCUGGGCAUAGACUCCACAUCC
..((((((..(((.....---.-----------------.)))..))))))......(((.(((((((...(((.((((....)))..).)))...))))))).))). ( -28.50)
>DroYak_CAF1 53462 91 + 1
GCAGAAUCGCCUGAAGCACAGG-----------------CAGAAGGAUCCUCCUUCAGAUGUGGAGUCCAAGCCGAAUGUGAUCAUCCUGGGCAUUGACUCCACAUCG
........(((((.....))))-----------------).(((((.....))))).(((((((((((...(((.((((....)))..).)))...))))))))))). ( -40.70)
>DroPer_CAF1 77720 106 + 1
CCAGGAUCAUUUGAGCUACGCGGACCUGGUGCGCGCCUUCCGCCUGCUCCACGAC--GAGGAGGAGCCCAAGCCGCAUGUCAUCAUCCUGGGCAUUGACUCCACCUCG
............((((...(((((...(((....))).)))))..)))).....(--((((.((((..((((((.((.(.......).))))).))).)))).))))) ( -37.80)
>consensus
ACAGGAUCGCCUGAAUCACGGGCAUAAGA_________UCCGGAGGAUCAUCGUCCAGAUUUGGAGUCCAAGCCGAAUGUGAUCAUCCUGGGCAUUGACUCCACAUCC
.((((....))))............................................(((.(((((((...(((.((((....)))..).)))...))))))).))). (-17.96 = -17.88 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 1,395,187 – 1,395,287
Length 100
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 74.00
Mean single sequence MFE -36.67
Consensus MFE -20.19
Energy contribution -20.83
Covariance contribution 0.64
Combinations/Pair 1.18
Mean z-score -2.05
Structure conservation index 0.55
SVM decision value 1.46
SVM RNA-class probability 0.955611
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1395187 100 - 23771897
GGAUGUGGAAUCAAUGCCCAGGAUGAUCACAUUCGGCUUGGAUUGCAAAUCUGGACGAUGAUGCUCCGUGU--------UCUUAUGCUCGUGAUUCAGGCGAUCCUGU
((((((((.(((.........)))..)))))))).....(((((((....(((((..((((.((.......--------......))))))..))))))))))))... ( -27.22)
>DroSec_CAF1 50126 100 - 1
GGAUAUGGAAUCAAUGCCCAGGAUGAUCACAUUCGGCUUGGACUCCAAAUCUGGCCGAUGAUCCUCCGGAC--------UCUUAUGCCCGUGAUUCAGGCGAUCCUGU
((((...((((((.......(((.(((((...(((((((((...))).....))))))))))).)))((.(--------......).)).)))))).....))))... ( -31.10)
>DroSim_CAF1 47780 100 - 1
GGAUGUGGAAUCAAUGCCCAGGAUGAUCACAUUGGGCUUGGACUCCAAAUCUGGACGAUGAUCCUCCGGAC--------UCUUAUGCCCGUGAUUCAGGCGAUCCUGU
((((.((((.((...((((((..........))))))...)).))))..((((((.(.....).)))))).--------.....((((.(.....).))))))))... ( -31.00)
>DroEre_CAF1 51835 88 - 1
GGAUGUGGAGUCUAUGCCCAGGAUGAUCACAUUCGGCUUGGACUCCAGAUCUGGGGGAGGAUCCUCUGG-----------------U---UUCUUCAGGCGAUCCUGC
((((.(((((((((.(((..(((((....)))))))).))))))))).))))...(.((((((.(((((-----------------.---....))))).)))))).) ( -42.00)
>DroYak_CAF1 53462 91 - 1
CGAUGUGGAGUCAAUGCCCAGGAUGAUCACAUUCGGCUUGGACUCCACAUCUGAAGGAGGAUCCUUCUG-----------------CCUGUGCUUCAGGCGAUUCUGC
.(((((((((((...(((..(((((....))))))))...))))))))))).(((((.....)))))((-----------------((((.....))))))....... ( -44.00)
>DroPer_CAF1 77720 106 - 1
CGAGGUGGAGUCAAUGCCCAGGAUGAUGACAUGCGGCUUGGGCUCCUCCUC--GUCGUGGAGCAGGCGGAAGGCGCGCACCAGGUCCGCGUAGCUCAAAUGAUCCUGG
(((((.((((((...(((..(.(((....))).))))...)))))).))))--)((((.(((((.(((((.((......))...))))).).))))..))))...... ( -44.70)
>consensus
GGAUGUGGAAUCAAUGCCCAGGAUGAUCACAUUCGGCUUGGACUCCAAAUCUGGACGAGGAUCCUCCGGA_________UCUUAUGCCCGUGAUUCAGGCGAUCCUGU
.(((.(((((((...(((..(((((....))))))))...))))))).)))............................................((((....)))). (-20.19 = -20.83 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 1,395,217 – 1,395,327
Length 110
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 83.26
Mean single sequence MFE -42.68
Consensus MFE -29.83
Energy contribution -31.67
Covariance contribution 1.83
Combinations/Pair 1.19
Mean z-score -2.19
Structure conservation index 0.70
SVM decision value 0.33
SVM RNA-class probability 0.689827
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1395217 110 - 23771897
AUUUGUGAACCUUGGGCAUGGAGCGUCUCAGGUUCAUGCGGGAUGUGGAAUCAAUGCCCAGGAUGAUCACAUUCGGCUUGGAUUGCAAAUCUGGACGAUGAUGCUCCGUG
................(((((((((((((.((((((.((.((((((((.(((.........)))..)))))))).)).)))))).((....))...)).))))))))))) ( -36.90)
>DroSec_CAF1 50156 110 - 1
AUUUGUGAACCUUGGGCAUGGAGCGUCGCAGGUUCAUGCGGGAUAUGGAAUCAAUGCCCAGGAUGAUCACAUUCGGCUUGGACUCCAAAUCUGGCCGAUGAUCCUCCGGA
.........((.(((((((.((...((.((.((((.....)))).)))).)).)))))))(((.(((((...(((((((((...))).....))))))))))).))))). ( -37.90)
>DroSim_CAF1 47810 110 - 1
AUUUGUGAACCUUGGGCAUGGAGCGUCGCAGGUUCAUGCGGGAUGUGGAAUCAAUGCCCAGGAUGAUCACAUUGGGCUUGGACUCCAAAUCUGGACGAUGAUCCUCCGGA
....(((((((((((((.....)).))).)))))))).((((((.((((.((...((((((..........))))))...)).)))).))).(((......))).))).. ( -36.80)
>DroEre_CAF1 51854 109 - 1
AUUUAUGCACCUUGGGCAUAGAGCGUCUCAGGUUCAUGCGGGAUGUGGAGUCUAUGCCCAGGAUGAUCACAUUCGGCUUGGACUCCAGAUCUGGGGGAGGAUCCUCUGG-
...((((.((((.((((.......)))).)))).))))(.((((.(((((((((.(((..(((((....)))))))).))))))))).)))).).((((....))))..- ( -45.80)
>DroYak_CAF1 53484 109 - 1
AUUUAUGCACCUUGGGCAUAGAGCGUCUUAGGUUCAUGCGCGAUGUGGAGUCAAUGCCCAGGAUGAUCACAUUCGGCUUGGACUCCACAUCUGAAGGAGGAUCCUUCUG-
...((((.((((.((((.......)))).)))).))))...(((((((((((...(((..(((((....))))))))...))))))))))).(((((.....)))))..- ( -46.30)
>DroPer_CAF1 77758 108 - 1
AGCGCAGGACCUGCGGCAUGGUGCGACGCAGGUUGAUGCGCGAGGUGGAGUCAAUGCCCAGGAUGAUGACAUGCGGCUUGGGCUCCUCCUC--GUCGUGGAGCAGGCGGA
.(((((.((((((((((.....))..))))))))..)))))((((.((((((...(((..(.(((....))).))))...)))))).))))--(((........)))... ( -52.40)
>consensus
AUUUGUGAACCUUGGGCAUGGAGCGUCGCAGGUUCAUGCGGGAUGUGGAAUCAAUGCCCAGGAUGAUCACAUUCGGCUUGGACUCCAAAUCUGGACGAGGAUCCUCCGGA
....((((((((.((((.......)))).)))))))).(.((((.(((((((...(((..(((((....))))))))...))))))).)))).)................ (-29.83 = -31.67 +   1.83)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:31 2006