Locus 3785

Sequence ID	2R_DroMel_CAF1
Location	12,514,373 – 12,514,482
Length	109
Max. P	0.950126

overview

Window 8

Location	12,514,373 – 12,514,482
Length	109
Sequences	6
Columns	109
Reading direction	forward
Mean pairwise identity	67.83
Mean single sequence MFE	-36.00
Consensus MFE	-13.37
Energy contribution	-14.32
Covariance contribution	0.95
Combinations/Pair	1.37
Mean z-score	-1.88
Structure conservation index	0.37
SVM decision value	0.54
SVM RNA-class probability	0.775267
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12514373 109 + 20766785
UACACGAGGGCGACCACCACCAAGGUGGUAAUCAUCGCUCCCACAACCAGGUCAACGACAAAGUGACAGAUGCGGGACCACCACGGUGGUUUUGGCCUGGGUUGCAAGC
.....(.((((((..(((((....))))).....)))))).).((((((((((((((.((..........)))).((((((....))))))))))))).)))))..... ( -39.30)
>DroPse_CAF1 44011 109 + 1
AACACAAUCGAAACCACGAUCAAACUCAUGAUGAUUAUGGCCAGAAUGGUUUCCAGGAUCUCGCAGCCAAUCCGACGCGUCCACGACUGAGUCCCCCUCUUGUGUAGGU
.((((((..(((((((...((....((((((...))))))...)).)))))))..(((.(((((..(......)..))(((...))).)))))).....)))))).... ( -21.70)
>DroSec_CAF1 48773 109 + 1
AACACCAGGGCGACCACCACCAAGGUGGUAACCAUCGCUCCCACAACCAGGUCAACGACAAAGUGACAGAUGCGGGAGCACCACGGUGGUUUUGGCCUGGGUUGCAAAC
(((.(((((.(((..((((((..(((((...)))))((((((.((.(...((((.(......))))).).)).)))))).....)))))).))).))))))))...... ( -47.90)
>DroEre_CAF1 43636 109 + 1
UACACCAGGGCGACCACCACCACAGUGGUAACCGCCACUCCCACAAUCAGGUCAACGACAAAGUGACAGAUGCGGGACCACCACGGUGGCUUCGGCCUGGGUUGUAAGC
(((((((((.(((...(((((...(((((....)))))((((.((.((..((((.(......))))).)))).)))).......)))))..))).)))))..))))... ( -43.40)
>DroYak_CAF1 44491 109 + 1
UAAACCAGGGCGACCACCACCACGGUGGUAAUCACUACUCCCAAAAUCACGUCAACGACGAAGCAACAUAUGCGGGACCACCACGGUGGUUUCGGCCUGGGUUGCAAAC
....(((((.(((..((((((..(((((..........((((.......((((...))))..(((.....))))))))))))..)))))).))).)))))......... ( -43.80)
>DroPer_CAF1 44026 109 + 1
AACACAAUCGAAACCACGAUCAAACUCAUGAUGAUUAUGGCCAGAAUGGUUUCCAGGAUCUCGCAGCCAAUCCGACGCGUCCACGACUGAGUCCCCCUCUUGUGCAGGU
..(((((..(((((((...((....((((((...))))))...)).)))))))..(((.(((((..(......)..))(((...))).)))))).....)))))..... ( -19.90)
>consensus
AACACCAGGGCGACCACCACCAAAGUGGUAAUCAUCACUCCCACAAUCAGGUCAACGACAAAGCAACAGAUGCGGGACCACCACGGUGGUUUCGGCCUGGGUUGCAAGC
.........(((((((((((....)))))...........................................((((.((((....)))).)))).....)))))).... (-13.37 = -14.32 +   0.95)

alignment

secondary structure

dotplot

Window 9

Location	12,514,373 – 12,514,482
Length	109
Sequences	6
Columns	109
Reading direction	reverse
Mean pairwise identity	67.83
Mean single sequence MFE	-41.97
Consensus MFE	-24.45
Energy contribution	-23.90
Covariance contribution	-0.55
Combinations/Pair	1.48
Mean z-score	-1.75
Structure conservation index	0.58
SVM decision value	1.40
SVM RNA-class probability	0.950126
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12514373 109 - 20766785
GCUUGCAACCCAGGCCAAAACCACCGUGGUGGUCCCGCAUCUGUCACUUUGUCGUUGACCUGGUUGUGGGAGCGAUGAUUACCACCUUGGUGGUGGUCGCCCUCGUGUA
.((..(((((.(((.(((...((..((((..(........)..))))..))...))).))))))))..)).((((((((((((((....))))))))))...))))... ( -43.00)
>DroPse_CAF1 44011 109 - 1
ACCUACACAAGAGGGGGACUCAGUCGUGGACGCGUCGGAUUGGCUGCGAGAUCCUGGAAACCAUUCUGGCCAUAAUCAUCAUGAGUUUGAUCGUGGUUUCGAUUGUGUU
....((((((....(((((((.(((...)))(((((.....))).))))).)))).((((((((((..(((((.......))).))..))..))))))))..)))))). ( -31.20)
>DroSec_CAF1 48773 109 - 1
GUUUGCAACCCAGGCCAAAACCACCGUGGUGCUCCCGCAUCUGUCACUUUGUCGUUGACCUGGUUGUGGGAGCGAUGGUUACCACCUUGGUGGUGGUCGCCCUGGUGUU
......(((((((((.(..(((((((.((((((((((((((.(((((......).))))..)).)))))))))...((...))))).)))))))..).).))))).))) ( -46.40)
>DroEre_CAF1 43636 109 - 1
GCUUACAACCCAGGCCGAAGCCACCGUGGUGGUCCCGCAUCUGUCACUUUGUCGUUGACCUGAUUGUGGGAGUGGCGGUUACCACUGUGGUGGUGGUCGCCCUGGUGUA
.......(((((((.(((.(((((((..(((((.((((..((.((((...((((......)))).)))).))..))))..)))))..)))))))..))).))))).)). ( -54.80)
>DroYak_CAF1 44491 109 - 1
GUUUGCAACCCAGGCCGAAACCACCGUGGUGGUCCCGCAUAUGUUGCUUCGUCGUUGACGUGAUUUUGGGAGUAGUGAUUACCACCGUGGUGGUGGUCGCCCUGGUUUA
.........(((((.(((.((((((((((((((((((((.....)))..((((...)))).......))))..........)))))))))))))..))).))))).... ( -44.90)
>DroPer_CAF1 44026 109 - 1
ACCUGCACAAGAGGGGGACUCAGUCGUGGACGCGUCGGAUUGGCUGCGAGAUCCUGGAAACCAUUCUGGCCAUAAUCAUCAUGAGUUUGAUCGUGGUUUCGAUUGUGUU
....((((((....(((((((.(((...)))(((((.....))).))))).)))).((((((((((..(((((.......))).))..))..))))))))..)))))). ( -31.50)
>consensus
GCUUGCAACCCAGGCCGAAACCACCGUGGUGGUCCCGCAUCUGUCACUUUGUCGUUGACCUGAUUGUGGGAGUAAUGAUUACCACCUUGGUGGUGGUCGCCCUGGUGUA
.........(((((.(((.(((((((.((((((((((((.(((...(.........)...))).)))))))..........))))).)))))))..))).))))).... (-24.45 = -23.90 +  -0.55)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:04 2006