Locus 437

Sequence ID 3R_DroMel_CAF1
Location 1,642,491 – 1,642,602
Length 111
Max. P 0.942280
window711 window712

overview

Window 1

Location 1,642,491 – 1,642,602
Length 111
Sequences 5
Columns 119
Reading direction forward
Mean pairwise identity 72.05
Mean single sequence MFE -41.94
Consensus MFE -21.86
Energy contribution -22.74
Covariance contribution 0.88
Combinations/Pair 1.20
Mean z-score -1.99
Structure conservation index 0.52
SVM decision value 1.32
SVM RNA-class probability 0.942280
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1642491 111 + 27905053
CACGUCCACAUCCACACCCACACCCGCACCCACACCAAUAUCCCUGCCCGCGACCCGUUCCC--------GGGCACAGGAUAGGGUUUCUUUCGCCCAGGCGGGUCGGGUGGCUAGGAG
..........(((.(((((..((((((...........(((((.((((((.((.....)).)--------)))))..)))))((((.......))))..)))))).)))))....))). ( -45.60)
>DroSim_CAF1 21900 93 + 1
CACGUCCAC------------------ACCCACACCAAUAUCCCUGCCCGCGACCCGUUCCC--------GGGCACAGGAUAGGGUUUCCUUCGCCCAGGCGGGUCGGGUGGCUAGGGG
.........------------------..............((((((((.(((((((..((.--------((((..((((.......))))..)))).))))))))).).))).)))). ( -43.00)
>DroEre_CAF1 22853 99 + 1
C------ACGCCCACACCCA------UGCCCACACCAAUGUCCCUUUCCUCGACCCGUUCCC--------GGGAACAGGAUAGGGUUUCCUUCGCACAGGCGGGUCGGGUGACUAGGGG
.------...(((.(((((.------.((((..........((((.((((...((((....)--------)))...)))).))))........((....)))))).)))))....))). ( -37.80)
>DroYak_CAF1 20122 105 + 1
CACUUCCACGUCCACACCCA------CACCCACACCAAUCGCCCCUUCCUCCACCCGUUUCC--------GCGAACAGGAUAGGGUUUCCUUCGCACAGGCGGGUCGGGUGGCUAGGGG
....................------...............(((((.(((((((((((((..--------((((..((((.......))))))))..)))))))).))).))..))))) ( -34.60)
>DroAna_CAF1 22044 111 + 1
CACGCCCACACCCACUCGCAC-----CACCCAUUCCACAGGCUA---CUUUGCCCCGGCCCCAACGAGGGGGCGACCGGACAAAGUUUCCUUCGCCCAGGCGGGUCGAGUGGCGAGGGG
....(((....(((((((.((-----(...........(((..(---(((((((.((.((((.....)))).))...)).))))))..))).(((....)))))))))))))....))) ( -48.70)
>consensus
CACGUCCACACCCACACCCA______CACCCACACCAAUAUCCCUGCCCUCGACCCGUUCCC________GGGAACAGGAUAGGGUUUCCUUCGCCCAGGCGGGUCGGGUGGCUAGGGG
............................(((...(((..........((.((((((((((((........)))))).(((.......)))...((....)))))))))))))...))). (-21.86 = -22.74 +   0.88) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 1,642,491 – 1,642,602
Length 111
Sequences 5
Columns 119
Reading direction reverse
Mean pairwise identity 72.05
Mean single sequence MFE -49.66
Consensus MFE -23.08
Energy contribution -24.00
Covariance contribution 0.92
Combinations/Pair 1.24
Mean z-score -1.82
Structure conservation index 0.46
SVM decision value 0.55
SVM RNA-class probability 0.778498
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1642491 111 - 27905053
CUCCUAGCCACCCGACCCGCCUGGGCGAAAGAAACCCUAUCCUGUGCCC--------GGGAACGGGUCGCGGGCAGGGAUAUUGGUGUGGGUGCGGGUGUGGGUGUGGAUGUGGACGUG
.(((((.((((((((((((((..(.(....)...((((..(((((((((--------(....)))).)))))).))))...)..).)))))).)))))..)).)).))).......... ( -53.50)
>DroSim_CAF1 21900 93 - 1
CCCCUAGCCACCCGACCCGCCUGGGCGAAGGAAACCCUAUCCUGUGCCC--------GGGAACGGGUCGCGGGCAGGGAUAUUGGUGUGGGU------------------GUGGACGUG
.((((.(((.(.(((((((((((((((.((((.......)))).)))))--------)))..))))))).))))))))..............------------------......... ( -46.00)
>DroEre_CAF1 22853 99 - 1
CCCCUAGUCACCCGACCCGCCUGUGCGAAGGAAACCCUAUCCUGUUCCC--------GGGAACGGGUCGAGGAAAGGGACAUUGGUGUGGGCA------UGGGUGUGGGCGU------G
.(((....((((((.((((((.((((....)...((((.((((...(((--------(....))))...)))).)))).))).)))).))...------)))))).)))...------. ( -45.60)
>DroYak_CAF1 20122 105 - 1
CCCCUAGCCACCCGACCCGCCUGUGCGAAGGAAACCCUAUCCUGUUCGC--------GGAAACGGGUGGAGGAAGGGGCGAUUGGUGUGGGUG------UGGGUGUGGACGUGGAAGUG
..((...((((((.((..(((((..(.((.....((((.((((.(.(.(--------(....)).).).))))))))....)).)..))))))------).)).))))....))..... ( -42.50)
>DroAna_CAF1 22044 111 - 1
CCCCUCGCCACUCGACCCGCCUGGGCGAAGGAAACUUUGUCCGGUCGCCCCCUCGUUGGGGCCGGGGCAAAG---UAGCCUGUGGAAUGGGUG-----GUGCGAGUGGGUGUGGGCGUG
.(((.(((((((((..(((((((..(.((((..(((((((((.(..(((((......)))))).))))))))---)..))).).)..))))))-----)..))))).)))).))).... ( -60.70)
>consensus
CCCCUAGCCACCCGACCCGCCUGGGCGAAGGAAACCCUAUCCUGUGCCC________GGGAACGGGUCGAGGAAAGGGACAUUGGUGUGGGUG______UGGGUGUGGACGUGGACGUG
.(((..(((((((....(((....)))........(((..(((((((((........)))))))))...)))...)))....))))..)))............................ (-23.08 = -24.00 +   0.92) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:43:10 2006