Locus 7642

Sequence ID	3R_DroMel_CAF1
Location	20,469,409 – 20,469,556
Length	147
Max. P	0.774207

overview

Window 0

Location	20,469,409 – 20,469,527
Length	118
Sequences	6
Columns	118
Reading direction	forward
Mean pairwise identity	80.17
Mean single sequence MFE	-48.12
Consensus MFE	-32.19
Energy contribution	-33.92
Covariance contribution	1.73
Combinations/Pair	1.20
Mean z-score	-1.71
Structure conservation index	0.67
SVM decision value	0.54
SVM RNA-class probability	0.774207
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20469409 118 + 27905053
AAUCUGGCCAGCAGCCAAAAGUAGUCACGGCAGGCGGGUCCGUAGGGAUCCUUGCCCUCUUCCGAGAGCAAAAACUGCGUGUGCUGGUUGCCAGAGCUCAUCUGCUCGGCCAAUGGCA
....(((((.(((((((...(((..((((.(((..((((((....))))))((((.(((....))).))))...)))))))))))))))))..((((......)))))))))...... ( -51.70)
>DroGri_CAF1 25351 118 + 1
AGUCGCGCCAGCAGCCAGAAGUAAUCUCGACACGCCGGUCCAUACGGCUCCUUGCCCUCCUCGGAGAGCAGAAACUGGGUGUGCUGCACCGAGGAGCUCAUCUGCUCGGCACGCGGCA
.((((((...(((((.(((.....)))..((((((((.......))))...((((.(((....))).)))).......))))))))).(((((.((.....)).)))))..)))))). ( -47.00)
>DroEre_CAF1 16516 118 + 1
AAUCUGGCCAGCAGCCAAAAGUAGUCACGGCAGGCGGGUCCGUAGGGAUCCUUGCCCUCCUCGGAAAGCAAAAACUGUGUGGGCUGGGUGCCAGAGCUCAUCUGCUCGGCCAAAGGCA
....(((((.(((.(((...((..(((((.(((..((((((....))))))((((..((....))..))))...))))))))))))).)))..((((......)))))))))...... ( -45.60)
>DroWil_CAF1 21665 118 + 1
AGUCUGGCCAGGAGCCAGAAGUAAUCUCGGCAGGCGGGACCAUAGGGUUCCUUGCCCUCCUCGGAUAGCAGGAAUUGUGCGUGCUGAACUGUCGACGUCAUCUGCUCGGCCAGCGGCA
.(.((((((..((((.(((.(.....(((((((.(((.((((((..((((((.((..((....))..)))))))))))).)).)))..)))))))...).)))))))))))))).... ( -47.30)
>DroMoj_CAF1 22150 118 + 1
AGUCGGGCGAGUAGCCAAAAGUAAUCCCGACAAGCUGGGCCAUACGGCUCCUUGCCCUCUUCCGAGAGCAAGAACUGCGUAUGCUGCACAGACGAGCUCAUCUGCUCGGCACGCGGGA
.....(((.....)))........(((((....(((((((.....((((((((((.(((....))).)))))..(((.((.....)).)))..))))).....)))))))...))))) ( -45.30)
>DroAna_CAF1 19689 118 + 1
AAACGGGCUAACAGCCAGAAGUAGUCACGGCAGGCGGGUCCGUACGGCUCCUUGCCUUCUUCGGAAAGCAGGAACUGCGUGUGCUGGGUGGCGGAGCUCAUCUGCUCGGCCAAUGGCA
......((((.((((((...(((((..(((((((.(((((.....)))))))))))(((....)))....)..))))).)).))))..((((.((((......)))).)))).)))). ( -51.80)
>consensus
AAUCGGGCCAGCAGCCAAAAGUAAUCACGGCAGGCGGGUCCAUACGGCUCCUUGCCCUCCUCGGAGAGCAAAAACUGCGUGUGCUGGACGGCAGAGCUCAUCUGCUCGGCCAACGGCA
......(((....(((...........(((((.((((((((....))))))((((.(((....))).)))).......)).))))).......((((......)))))))....))). (-32.19 = -33.92 +   1.73)

alignment

secondary structure

dotplot

Window 1

Location	20,469,449 – 20,469,556
Length	107
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	80.75
Mean single sequence MFE	-40.08
Consensus MFE	-25.45
Energy contribution	-25.18
Covariance contribution	-0.27
Combinations/Pair	1.32
Mean z-score	-1.47
Structure conservation index	0.63
SVM decision value	-0.00
SVM RNA-class probability	0.531256
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20469449 107 - 27905053
ACCACUGCUGCACAAGCUCAUCGCCCUGUUGCCAUUGGCCGAGCAGAUGAGCUCUGGCAACCAGCACACGCAGUUUUUGCUCUCGGAAGAGGGCAAGGAUCCCUACG
.((...(((((...((((((((((.(.(((......))).).)).))))))))((((...)))).....)))))..((((((((....))))))))))......... ( -41.50)
>DroVir_CAF1 21134 107 - 1
UCCUCUGCUCCACAAGCUUAUUGCAUUGCUGCCGCGUGCCGAGCAAAUGAGUUCUUCAGUGCAGCACACCCAGUUUUUGCUUUCUGAAGAGGGCAAGGAGCCAUAUG
......(((((....((.....))..((((((.((.((..((((......))))..))))))))))..........((((((((....)))))))))))))...... ( -33.40)
>DroPse_CAF1 19051 107 - 1
CCCGCUGCUGCAUAAGCUGAUCACCCUGCUGCCGAUGGCCGAGCAGAUGAGCGCCUCCACGCAGCACACACAGUUCCUGCUGUCGGAGGAGGGCAAGGAGCCGUACG
...(((((((.....(((.(((....(((((((...)))..))))))).))).....)).)))))....((.(((((((((.((....)).))).)))))).))... ( -38.40)
>DroGri_CAF1 25391 107 - 1
GCCGCUGCUGCACAAGCUGAUCGCCCUGCUGCCGCGUGCCGAGCAGAUGAGCUCCUCGGUGCAGCACACCCAGUUUCUGCUCUCCGAGGAGGGCAAGGAGCCGUAUG
.....((((((((.((((.(((((.(.((........)).).)).))).)))).....))))))))((..(.((((((((((((....)))))).)))))).)..)) ( -43.20)
>DroMoj_CAF1 22190 107 - 1
UCCUCUGCUCCACAAACUUAUCGCACUGCUCCCGCGUGCCGAGCAGAUGAGCUCGUCUGUGCAGCAUACGCAGUUCUUGCUCUCGGAAGAGGGCAAGGAGCCGUAUG
......(((.((((.((.....((((.((....)))))).((((......)))))).)))).)))(((((...(((((((((((....)))))))))))..))))). ( -46.00)
>DroAna_CAF1 19729 107 - 1
UCCACUGCUGCACAAGUUGAUAGCCUUGUUGCCAUUGGCCGAGCAGAUGAGCUCCGCCACCCAGCACACGCAGUUCCUGCUUUCCGAAGAAGGCAAGGAGCCGUACG
.....(((((((((((........)))).)))...((((.((((......)))).))))...))))...((.((((((((((((....)))))).)))))).))... ( -38.00)
>consensus
UCCACUGCUGCACAAGCUGAUCGCCCUGCUGCCGCGGGCCGAGCAGAUGAGCUCCUCCAUGCAGCACACGCAGUUCCUGCUCUCGGAAGAGGGCAAGGAGCCGUACG
.....((((((.........(((..(((((((.....))..))))).)))..........))))))......((((((((((((....)))))).))))))...... (-25.45 = -25.18 +  -0.27)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:51:02 2006