Locus 206

Sequence ID	X_DroMel_CAF1
Location	737,864 – 738,019
Length	155
Max. P	0.896866

overview

Window 4

Location	737,864 – 737,960
Length	96
Sequences	6
Columns	99
Reading direction	reverse
Mean pairwise identity	75.58
Mean single sequence MFE	-27.02
Consensus MFE	-19.77
Energy contribution	-19.05
Covariance contribution	-0.72
Combinations/Pair	1.33
Mean z-score	-0.97
Structure conservation index	0.73
SVM decision value	0.35
SVM RNA-class probability	0.698760
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 737864 96 - 22224390
CCCAUCAGUUGCCCC---ACCAGUUGCCCCAUCCAUCGCUCUACCCGCUAAUGGCCGCCGCCCAGUUGGGCUAUGCCGGCUCCAGCGGACCCAGUUCGU
.....((..((....---..))..))...........(((....(((((...((((((.((((....))))...).)))))..)))))....))).... ( -23.40)
>DroVir_CAF1 86653 84 - 1
C------------GC---AUAUGGCGGCACAUCAUUCCCUGUAUCCGCUGAUGGCUGCCGCCCAACUGGGCUAUGUGGGCUCCAGUGGGCCCAGCUCUC
.------------((---(((.((((((.(((((..............)))))))))))((((....)))))))))((((((....))))))....... ( -37.24)
>DroGri_CAF1 96635 84 - 1
C------------AC---AUUUGGCUACACAUCAUACGCUCUACCCGCUAAUGGCUGCCGCCCAGCUGGGUUACGUGAGCUCCAGUGGGCCCAGCUCGC
.------------.(---(((.(((.....................)))))))((((..(((((.(((((...(....).)))))))))).)))).... ( -24.70)
>DroYak_CAF1 56832 84 - 1
C------------CC---ACCAGUUGCCCCACCCAUCGCUCUACCCGCUCAUGGCCGCCGCCCAACUGGGCUAUGCCGGCUCCAGCGGACCCAGUUCAC
.------------..---...................(((....(((((...((((((.((((....))))...).)))))..)))))....))).... ( -23.30)
>DroMoj_CAF1 105164 84 - 1
C------------GC---AUCUGCCGCCCCAUCAUUCGCUCUAUCCGCUAAUGGCCGCCGCCCAGCUGGGCUAUGUGGGCUCCAGUGGGCCCAGUUCGC
.------------((---..(((..(((((.(((((.((.......)).)))))((((.((((....))))...))))......).)))).)))...)) ( -26.50)
>DroAna_CAF1 68492 87 - 1
C------------CCAUCACCAGCUGCCCCACCCGUCACUCUACCCGCUGAUGGCAGCCGCCCAACUGGGCUACGCCGGCUCCAGUGGACCCAGCUCCC
.------------........(((((..(((((((((((.......).)))))).((((((((....))))......))))...))))...)))))... ( -27.00)
>consensus
C____________CC___ACCAGCCGCCCCAUCAUUCGCUCUACCCGCUAAUGGCCGCCGCCCAACUGGGCUAUGCCGGCUCCAGUGGACCCAGCUCGC
............................................(((((...((((((.((((....))))...)).))))..)))))........... (-19.77 = -19.05 +  -0.72)

alignment

secondary structure

dotplot

Window 5

Location	737,926 – 738,019
Length	93
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	79.55
Mean single sequence MFE	-27.57
Consensus MFE	-18.95
Energy contribution	-18.78
Covariance contribution	-0.16
Combinations/Pair	1.29
Mean z-score	-1.96
Structure conservation index	0.69
SVM decision value	0.99
SVM RNA-class probability	0.896866
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 737926 93 - 22224390
CGGCAGUUCA------CAUCAUCAUCUGGGCCACGUGGGACACUUGGCCACUGGCCACCC---GCUGCCCCAUCAGUUGCCCC---ACCAGUUGCCCCAUCCAUC
.(((((....------..........((((.((.(((((.....(((((...))))))))---)))).))))....(((....---..))))))))......... ( -25.80)
>DroSec_CAF1 53759 81 - 1
CGGCAGUUCA------CAUCAUCAUUUGGGCCACGUGGGACACUUGGCCACUGGCCACCC---GCUGCC------------CC---ACCAAUUGCCCCAUCCAUC
.(((((((..------..........((((.((.(((((.....(((((...))))))))---)))).)------------))---)..)))))))......... ( -26.64)
>DroSim_CAF1 23105 81 - 1
CGGCAGUUCA------CAUCAUCAUUUGGGCCACGUGGGACACUUGGCCACUGGCCACCC---GCUGCC------------CC---ACCAAUUGCCCCAUCCAUC
.(((((((..------..........((((.((.(((((.....(((((...))))))))---)))).)------------))---)..)))))))......... ( -26.64)
>DroEre_CAF1 60282 81 - 1
CGGCAGUUCA------CAUCAUCAUCUGGGCCACGUGGGACACUUGGCCACUGGCCACCC---GCUGCC------------CC---ACCAGUUGCCCCACCCAUC
.(((((....------).........((((.((.(((((.....(((((...))))))))---)))).)------------))---).....))))......... ( -25.20)
>DroYak_CAF1 56894 81 - 1
CGGCAGCUCA------CACCAUCAUCUGGGCCACGUGGGUCACUUGGCCACUGGCCACCC---GCUGCC------------CC---ACCAGUUGCCCCACCCAUC
.(((((((..------..........((((.((.((((((.....((((...))))))))---)))).)------------))---)..)))))))......... ( -29.04)
>DroAna_CAF1 68554 93 - 1
GGGCGGUUCGUCGCACCACCACCAGCUGGGGCAUGUGGCAGCCCACCUCAGUGGUCAUCCCGGUCUGUC------------CCAUCACCAGCUGCCCCACCCGUC
(((((((.......)))......((((((.(.(((.(((((.(((((.....)))......)).)))))------------.)))).))))))))))........ ( -32.10)
>consensus
CGGCAGUUCA______CAUCAUCAUCUGGGCCACGUGGGACACUUGGCCACUGGCCACCC___GCUGCC____________CC___ACCAGUUGCCCCACCCAUC
.((((((............((.....))(((((.((((.........))))))))).......)))))).................................... (-18.95 = -18.78 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:59 2006