Locus 929

Sequence ID	2L_DroMel_CAF1
Location	2,669,885 – 2,670,000
Length	115
Max. P	0.789438

overview

Window 7

Location	2,669,885 – 2,670,000
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	73.76
Mean single sequence MFE	-32.01
Consensus MFE	-10.87
Energy contribution	-14.27
Covariance contribution	3.40
Combinations/Pair	1.29
Mean z-score	-1.87
Structure conservation index	0.34
SVM decision value	0.58
SVM RNA-class probability	0.789438
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2669885 115 + 22407834
GUUCCACUUCCUCCUAUUUCGCAGUUGGGAUGGCUGUUUUUAU-----CAUUGGCCAUUCGCUGCUGUUGGAUAGUUUACUUUAUAUAUUUGCUGGACGUUGCCAUCAGCUUUUCGUGGG
...((((......(((((..(((((.((((((((((.......-----...))))))))).).)))))..)))))................(((((.........))))).....)))). ( -32.00)
>DroSim_CAF1 90879 115 + 1
GUUCCACUUCCUCCUAUUUCGCAGUUGGGAUGGCUGUUUUUAU-----CAUUGGCCAUUCGCUGCUGUUGGAUAGUUUACAUUAUAUAUUUGCUGGACGUUGCCGUCAGCUUUUCGUGGG
...((((......(((((..(((((.((((((((((.......-----...))))))))).).)))))..)))))................((((.(((....))))))).....)))). ( -35.70)
>DroEre_CAF1 103734 115 + 1
GUGCCACUUCCUCCAAUUUCGCAAUUGAGAUGGCUGCUUUUAU-----CAUUGGCGCUUCGCUGCUGCUGGAUAGCUUACUUUAUAUAUUUGCUGGAGGUUGCCAUCAACUUUUCAUGGG
...(((.......(((((....))))).((((((.(((((...-----..(..((((......)).))..).((((...............))))))))).)))))).........))). ( -26.76)
>DroWil_CAF1 170321 115 + 1
GUUCCUUUACCGUCU--UCGGCA---AAGAUAUAUUCUUUUAUAGCAUUCAUUGCAUUGCGUGUCAUCUGGAUUCUAUAUUUUAGCUAUAUGCUAAGCCGAGGCAUCGGUUUUCUGUAUA
........((((.((--((((((---((((.....)))))(((((.(((((.(((((...))).))..))))).)))))..(((((.....))))))))))))...)))).......... ( -29.90)
>DroYak_CAF1 93505 115 + 1
GUGCCACUUCCUCCUGUUUCGCAGUGGAGAUGGCUGUUCCUAU-----CAUUGGCCAUUCGCUGCUGCUGGAUAGCUUACAUUAUGUAUUUGCUGGAAGUUGCCAUCAGCUUUUCAUGGG
(.((.(((((((((.((...((((((..((((((((.......-----...)))))))))))))).)).))).(((.(((.....)))...))))))))).)))................ ( -35.70)
>consensus
GUUCCACUUCCUCCUAUUUCGCAGUUGAGAUGGCUGUUUUUAU_____CAUUGGCCAUUCGCUGCUGCUGGAUAGUUUACUUUAUAUAUUUGCUGGACGUUGCCAUCAGCUUUUCGUGGG
...((((......((((((.(((((.(.(((((((.................)))))).).).))))).))))))................(((((.........))))).....)))). (-10.87 = -14.27 +   3.40)

alignment

secondary structure

dotplot

Window 8

Location	2,669,885 – 2,670,000
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	73.76
Mean single sequence MFE	-26.50
Consensus MFE	-8.55
Energy contribution	-11.71
Covariance contribution	3.16
Combinations/Pair	1.26
Mean z-score	-1.70
Structure conservation index	0.32
SVM decision value	0.04
SVM RNA-class probability	0.554534
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2669885 115 - 22407834
CCCACGAAAAGCUGAUGGCAACGUCCAGCAAAUAUAUAAAGUAAACUAUCCAACAGCAGCGAAUGGCCAAUG-----AUAAAAACAGCCAUCCCAACUGCGAAAUAGGAGGAAGUGGAAC
.((((.....(((((((....))).))))...................(((....((((.(.(((((.....-----.........))))).)...))))......)))....))))... ( -28.24)
>DroSim_CAF1 90879 115 - 1
CCCACGAAAAGCUGACGGCAACGUCCAGCAAAUAUAUAAUGUAAACUAUCCAACAGCAGCGAAUGGCCAAUG-----AUAAAAACAGCCAUCCCAACUGCGAAAUAGGAGGAAGUGGAAC
.((((.....(((((((....))).))))...................(((....((((.(.(((((.....-----.........))))).)...))))......)))....))))... ( -30.04)
>DroEre_CAF1 103734 115 - 1
CCCAUGAAAAGUUGAUGGCAACCUCCAGCAAAUAUAUAAAGUAAGCUAUCCAGCAGCAGCGAAGCGCCAAUG-----AUAAAAGCAGCCAUCUCAAUUGCGAAAUUGGAGGAAGUGGCAC
.((((........((((((........((...(((.....))).(((....))).)).(((...))).....-----.........))))))((((((....)))))).....))))... ( -20.90)
>DroWil_CAF1 170321 115 - 1
UAUACAGAAAACCGAUGCCUCGGCUUAGCAUAUAGCUAAAAUAUAGAAUCCAGAUGACACGCAAUGCAAUGAAUGCUAUAAAAGAAUAUAUCUU---UGCCGA--AGACGGUAAAGGAAC
...........((..((((((((((((((.....)))))..(((((.((.((..((.((.....)))).)).)).)))))(((((.....))))---))))))--....))))..))... ( -23.00)
>DroYak_CAF1 93505 115 - 1
CCCAUGAAAAGCUGAUGGCAACUUCCAGCAAAUACAUAAUGUAAGCUAUCCAGCAGCAGCGAAUGGCCAAUG-----AUAGGAACAGCCAUCUCCACUGCGAAACAGGAGGAAGUGGCAC
.((.......((((..(....)...))))...............(((((...((....))..))))).....-----...))....((((..(((.(((.....)))..)))..)))).. ( -30.30)
>consensus
CCCACGAAAAGCUGAUGGCAACGUCCAGCAAAUAUAUAAAGUAAACUAUCCAGCAGCAGCGAAUGGCCAAUG_____AUAAAAACAGCCAUCUCAACUGCGAAAUAGGAGGAAGUGGAAC
.((((.....(((((((....))).))))...................(((....((((...(((((...................))))).....))))......)))....))))... ( -8.55 = -11.71 +   3.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:00 2006