Locus 4650

Sequence ID	3L_DroMel_CAF1
Location	13,185,915 – 13,186,075
Length	160
Max. P	0.922930

overview

Window 5

Location	13,185,915 – 13,186,035
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.62
Mean single sequence MFE	-28.13
Consensus MFE	-25.86
Energy contribution	-25.90
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.48
Structure conservation index	0.92
SVM decision value	1.15
SVM RNA-class probability	0.922930
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13185915 120 - 23771897
CGUCGGUAUUCCAUUAAGAGCUCAAAGAGUCGCAGACACAUGCAUUUAAUGCUUCAGUCUGCAAUUUCUGUGGCUCCCGUCUGACAAUCCGUCUACUGCUACAUUGUGUUCCCUCCUUCU
....((....)).....((((.(((((((..((((((....((((...))))....))))))...))))(((((....((..(((.....))).)).))))).))).))))......... ( -29.70)
>DroSec_CAF1 37434 117 - 1
CGUCGGUAUUCCAUUAAGAGCUCAAAGAGUCACAGACACAUGCAUUUAAUGCUUCAGUCUGCAAUUUCUGUGGCUCCCGUCUGACAAUCCGUCUACUG---CAUUGUGUUCUCGCCUUCU
....((....))....(((((.(((.((((((((((....((((...............))))...))))))))))..((..(((.....))).))..---..))).)))))........ ( -27.36)
>DroSim_CAF1 35675 117 - 1
CGUCGGUAUUCCAUUAAGAGCUCAAAGAGUCACAGACACAUGCAUUUAAUGCUUCAGUCUGCAAUUUCUGUGGCUCCCGUCUGACAAUCCGUCUACUG---CAUUGUGUUCUCUCCUUCU
....((....))....(((((.(((.((((((((((....((((...............))))...))))))))))..((..(((.....))).))..---..))).)))))........ ( -27.36)
>DroEre_CAF1 40917 117 - 1
CGUCGGUAUUCCAUUAAGAGCUCAAAGAGUCACAGACACAUGCAUUUAAUGCUUCAGUCUGCAAUUUCUGUGGCUCCCGUCUGACAAUCCGUCUACUG---CAUUGUGUUCUCUCCUUCU
....((....))....(((((.(((.((((((((((....((((...............))))...))))))))))..((..(((.....))).))..---..))).)))))........ ( -27.36)
>DroYak_CAF1 36598 117 - 1
CAACGGUAUUCCAUUGAGAGCUGAAAGAGUCACAGACACAUGCAUUUAAUGCUUCAGUCUGCAAUUUCUGUGGCUCCCGUCUGACAAUCCGUCUACUG---CAUUGUGUUCUCUCCUUCU
....((....))...((((((.((..((((((((((....((((...............))))...))))))))))...))..(((((.((.....))---.)))))))))))....... ( -28.86)
>consensus
CGUCGGUAUUCCAUUAAGAGCUCAAAGAGUCACAGACACAUGCAUUUAAUGCUUCAGUCUGCAAUUUCUGUGGCUCCCGUCUGACAAUCCGUCUACUG___CAUUGUGUUCUCUCCUUCU
....((....)).....((((.(((.((((((((((....((((...............))))...))))))))))..((..(((.....))).)).......))).))))......... (-25.86 = -25.90 +   0.04)

alignment

secondary structure

dotplot

Window 6

Location	13,185,955 – 13,186,075
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.17
Mean single sequence MFE	-32.36
Consensus MFE	-28.16
Energy contribution	-29.48
Covariance contribution	1.32
Combinations/Pair	1.09
Mean z-score	-1.60
Structure conservation index	0.87
SVM decision value	1.00
SVM RNA-class probability	0.898423
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13185955 120 + 23771897
ACGGGAGCCACAGAAAUUGCAGACUGAAGCAUUAAAUGCAUGUGUCUGCGACUCUUUGAGCUCUUAAUGGAAUACCGACGACCUUUGGAAAAGGGUGCGAGAUACACUAUAAGUUUAAAA
..((((((((.(((..((((((((....((((...))))....)))))))).))).)).))))))..(((....))).((((((((....)))))).))..................... ( -35.10)
>DroSec_CAF1 37471 120 + 1
ACGGGAGCCACAGAAAUUGCAGACUGAAGCAUUAAAUGCAUGUGUCUGUGACUCUUUGAGCUCUUAAUGGAAUACCGACGAACUUUGGAAAAGGGUGCGAGAUACACUAUAAGUUUUAAA
..((((((((.(((..(..(((((....((((...))))....)))))..).))).)).))))))..((((((.((((......)))).....((((.......))))....)))))).. ( -29.30)
>DroSim_CAF1 35712 120 + 1
ACGGGAGCCACAGAAAUUGCAGACUGAAGCAUUAAAUGCAUGUGUCUGUGACUCUUUGAGCUCUUAAUGGAAUACCGACGACCUUUGGAAAAGGGUGCGAGAUACACUAUAAGUUUUAAA
..((((((((.(((..(..(((((....((((...))))....)))))..).))).)).))))))..(((....))).((((((((....)))))).))..................... ( -32.90)
>DroEre_CAF1 40954 120 + 1
ACGGGAGCCACAGAAAUUGCAGACUGAAGCAUUAAAUGCAUGUGUCUGUGACUCUUUGAGCUCUUAAUGGAAUACCGACGAACUUUGGGAAAGGGUGCGAGAUACACUAUAAGUCUUAAA
.(((((((((.(((..(..(((((....((((...))))....)))))..).))).)).)))))...(((....))).))....((((((...((((.......)))).....)))))). ( -30.60)
>DroYak_CAF1 36635 120 + 1
ACGGGAGCCACAGAAAUUGCAGACUGAAGCAUUAAAUGCAUGUGUCUGUGACUCUUUCAGCUCUCAAUGGAAUACCGUUGACCUUUGGAAAAGGGUGCGAGAUACACUACAAGUUUUCAA
..(..(((....(((((..(((((....((((...))))....)))))..)...))))..(((.((((((....))))))((((((....))))))..)))...........)))..).. ( -33.90)
>consensus
ACGGGAGCCACAGAAAUUGCAGACUGAAGCAUUAAAUGCAUGUGUCUGUGACUCUUUGAGCUCUUAAUGGAAUACCGACGACCUUUGGAAAAGGGUGCGAGAUACACUAUAAGUUUUAAA
..((((((((.(((..((((((((....((((...))))....)))))))).))).)).))))))..(((....))).((((((((....)))))).))..................... (-28.16 = -29.48 +   1.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:33 2006