Locus 7730

Sequence ID	3L_DroMel_CAF1
Location	20,621,593 – 20,621,700
Length	107
Max. P	0.677222

overview

Window 7

Location	20,621,593 – 20,621,700
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	82.44
Mean single sequence MFE	-36.42
Consensus MFE	-21.82
Energy contribution	-22.96
Covariance contribution	1.14
Combinations/Pair	1.04
Mean z-score	-1.83
Structure conservation index	0.60
SVM decision value	-0.01
SVM RNA-class probability	0.527308
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20621593 107 + 23771897
UUUUGUCCUCGUAAAUGUUCGAGGUGCUGGCUGCACAAAUUAAUAUUGUGGAUUGUGGUGUGCGGUCCUCGGAGUUCGG-------------AGUUCUAUCCUCGGUGCUCGGUGGACAU
...(((((.(.........(((((.....((((((((...((((.......))))...)))))))))))))((((.(.(-------------((.......))).).)))).).))))). ( -35.30)
>DroSec_CAF1 66345 107 + 1
UUUUGUCCUCGUAAAUGUUCGAGGUGCUGGCUGCACAAAUUAAUAUUGUGGAUUGUGGUGUGCGGUCCUCGGAGUUCGG-------------AGGUCUGUCCUCCGUGCUCGGUGGACAU
...(((((.(.........(((((.....((((((((...((((.......))))...)))))))))))))((((.(((-------------(((.....)))))).)))).).))))). ( -43.70)
>DroAna_CAF1 88086 83 + 1
UUUUGUCCUCGUAAAUGUUCGAGGUGCUGGCUGCACAAAUUAAUAUUGUGGAUUGCGGUGUGAGGUCCUGGGUCCUCG-------------------------------------GACAU
...((((((((........))).((((.....))))......(((((((.....)))))))((((.(....).)))))-------------------------------------)))). ( -24.60)
>DroSim_CAF1 61245 107 + 1
UUUUGUCCUCGUAAAUGUUCGAGGUGCUGGCUGCACAAAUUAAUAUUGUGGAUUGUGGUGUGCGGUCCUCGGAGUUCGG-------------AGGUCUGUCCUCGGUGCUCGGUGGACAU
...(((((.(.........(((((.....((((((((...((((.......))))...)))))))))))))((((.(.(-------------(((.....)))).).)))).).))))). ( -39.40)
>DroEre_CAF1 58799 120 + 1
UUUUGUCCUCGUAAAUGUUCGAGGUGCUGGCUGCACAAAUUAAUAUUGUGGAUUGUGGUGUGCGGUCCUCGGAGAUCGGUCCUCGUUCCCGGUGCUCAGUGCUCAGUGCUCGGUGGACAU
...(((((..........((((.(..((((..((((..........((.(((((((.....))))))).))((((((((.........))))).))).))))))))..))))).))))). ( -39.10)
>consensus
UUUUGUCCUCGUAAAUGUUCGAGGUGCUGGCUGCACAAAUUAAUAUUGUGGAUUGUGGUGUGCGGUCCUCGGAGUUCGG_____________AGGUCUGUCCUCGGUGCUCGGUGGACAU
...(((((.(.......(((((((.....((((((((...((((.......))))...)))))))))))))))....................((.....))..........).))))). (-21.82 = -22.96 +   1.14)

alignment

secondary structure

dotplot

Window 8

Location	20,621,593 – 20,621,700
Length	107
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	82.44
Mean single sequence MFE	-26.54
Consensus MFE	-14.14
Energy contribution	-14.88
Covariance contribution	0.74
Combinations/Pair	1.06
Mean z-score	-2.25
Structure conservation index	0.53
SVM decision value	0.30
SVM RNA-class probability	0.677222
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20621593 107 - 23771897
AUGUCCACCGAGCACCGAGGAUAGAACU-------------CCGAACUCCGAGGACCGCACACCACAAUCCACAAUAUUAAUUUGUGCAGCCAGCACCUCGAACAUUUACGAGGACAAAA
.(((((...(((..(.(((.......))-------------).)..)))(((((...(((((.....................))))).(....).)))))...........)))))... ( -24.90)
>DroSec_CAF1 66345 107 - 1
AUGUCCACCGAGCACGGAGGACAGACCU-------------CCGAACUCCGAGGACCGCACACCACAAUCCACAAUAUUAAUUUGUGCAGCCAGCACCUCGAACAUUUACGAGGACAAAA
.(((((...(((..((((((.....)))-------------)))..)))(((((...(((((.....................))))).(....).)))))...........)))))... ( -33.30)
>DroAna_CAF1 88086 83 - 1
AUGUC-------------------------------------CGAGGACCCAGGACCUCACACCGCAAUCCACAAUAUUAAUUUGUGCAGCCAGCACCUCGAACAUUUACGAGGACAAAA
.((((-------------------------------------(((((.(....).)))).........................((((.....)))).(((........))))))))... ( -18.90)
>DroSim_CAF1 61245 107 - 1
AUGUCCACCGAGCACCGAGGACAGACCU-------------CCGAACUCCGAGGACCGCACACCACAAUCCACAAUAUUAAUUUGUGCAGCCAGCACCUCGAACAUUUACGAGGACAAAA
.(((((...(((..(.((((.....)))-------------).)..)))(((((...(((((.....................))))).(....).)))))...........)))))... ( -27.20)
>DroEre_CAF1 58799 120 - 1
AUGUCCACCGAGCACUGAGCACUGAGCACCGGGAACGAGGACCGAUCUCCGAGGACCGCACACCACAAUCCACAAUAUUAAUUUGUGCAGCCAGCACCUCGAACAUUUACGAGGACAAAA
.(((((..((((..(((.((...(..(..(((((.((.....)).)).)))..)..)(((((.....................))))).)))))...))))..(......).)))))... ( -28.40)
>consensus
AUGUCCACCGAGCACCGAGGACAGACCU_____________CCGAACUCCGAGGACCGCACACCACAAUCCACAAUAUUAAUUUGUGCAGCCAGCACCUCGAACAUUUACGAGGACAAAA
.(((((............((.....))......................(((((...(((((.....................))))).(....).)))))...........)))))... (-14.14 = -14.88 +   0.74)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:23 2006