Locus 747

Sequence ID	3L_DroMel_CAF1
Location	2,237,715 – 2,237,867
Length	152
Max. P	0.936725

overview

Window 7

Location	2,237,715 – 2,237,815
Length	100
Sequences	3
Columns	100
Reading direction	forward
Mean pairwise identity	96.00
Mean single sequence MFE	-21.10
Consensus MFE	-21.54
Energy contribution	-21.10
Covariance contribution	-0.44
Combinations/Pair	1.09
Mean z-score	-1.58
Structure conservation index	1.02
SVM decision value	0.63
SVM RNA-class probability	0.805640
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2237715 100 + 23771897
UACAUGUUCCACCUGCCCGCAGAUUAAAAUAACCCCCAAGCACUUGCUGAUAACAUGCGACCAGAAGUUUAGGGAGCCAAUAGGCUUCCCAAAAACCCAC
..((((((....(((....)))................(((....)))...)))))).........((((.(((((((....)))))))...)))).... ( -21.50)
>DroSec_CAF1 18639 100 + 1
UACAUGUUCCACCUGCCCUCAGAUUAAAAUAACCCCCAAGUACUUGCUGAUAACAUGCGACCAGAAGUUUAGGGAGCCAGUAGGCUUCCCAAAAACCCAC
..((((((....(((....)))................(((....)))...)))))).........((((.(((((((....)))))))...)))).... ( -17.40)
>DroSim_CAF1 18714 100 + 1
UACAUGUUCCACCUGCCCGCAGAUUAAAAUAACCCCCAAGCAGUUGCUGAUAACAUGCGACCAAAAGUUUAGGGAGCCAGUAGGCUCCCCAAAAACCCAC
..((((((....(((....)))................(((....)))...)))))).........((((.(((((((....)))))))...)))).... ( -24.40)
>consensus
UACAUGUUCCACCUGCCCGCAGAUUAAAAUAACCCCCAAGCACUUGCUGAUAACAUGCGACCAGAAGUUUAGGGAGCCAGUAGGCUUCCCAAAAACCCAC
..((((((....(((....)))................(((....)))...)))))).........((((.(((((((....)))))))...)))).... (-21.54 = -21.10 +  -0.44)

alignment

secondary structure

dotplot

Window 8

Location	2,237,715 – 2,237,815
Length	100
Sequences	3
Columns	100
Reading direction	reverse
Mean pairwise identity	96.00
Mean single sequence MFE	-36.27
Consensus MFE	-32.23
Energy contribution	-32.90
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.88
Structure conservation index	0.89
SVM decision value	1.26
SVM RNA-class probability	0.936725
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2237715 100 - 23771897
GUGGGUUUUUGGGAAGCCUAUUGGCUCCCUAAACUUCUGGUCGCAUGUUAUCAGCAAGUGCUUGGGGGUUAUUUUAAUCUGCGGGCAGGUGGAACAUGUA
..(((..((((((.((((....)))).))))))..)))....(((((((.(((.(...((((((.((((((...)))))).))))))).)))))))))). ( -36.20)
>DroSec_CAF1 18639 100 - 1
GUGGGUUUUUGGGAAGCCUACUGGCUCCCUAAACUUCUGGUCGCAUGUUAUCAGCAAGUACUUGGGGGUUAUUUUAAUCUGAGGGCAGGUGGAACAUGUA
..(((..((((((.((((....)))).))))))..)))....(((((((....((..(..((..((...........))..))..)..))..))))))). ( -29.60)
>DroSim_CAF1 18714 100 - 1
GUGGGUUUUUGGGGAGCCUACUGGCUCCCUAAACUUUUGGUCGCAUGUUAUCAGCAACUGCUUGGGGGUUAUUUUAAUCUGCGGGCAGGUGGAACAUGUA
.(..(..(((((((((((....)))))))))))..)..)...(((((((.(((....(((((((.((((((...)))))).))))))).)))))))))). ( -43.00)
>consensus
GUGGGUUUUUGGGAAGCCUACUGGCUCCCUAAACUUCUGGUCGCAUGUUAUCAGCAAGUGCUUGGGGGUUAUUUUAAUCUGCGGGCAGGUGGAACAUGUA
..((((((..(((.((((....))))))).))))))......(((((((.(((.(...((((((.((((((...)))))).))))))).)))))))))). (-32.23 = -32.90 +   0.67)

alignment

secondary structure

dotplot

Window 9

Location	2,237,736 – 2,237,855
Length	119
Sequences	3
Columns	119
Reading direction	reverse
Mean pairwise identity	92.44
Mean single sequence MFE	-38.07
Consensus MFE	-33.82
Energy contribution	-34.27
Covariance contribution	0.45
Combinations/Pair	1.03
Mean z-score	-1.67
Structure conservation index	0.89
SVM decision value	-0.02
SVM RNA-class probability	0.523581
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2237736 119 - 23771897
GCAGCUGCCAUCGAAGCGGAUCAGAUGUACAACUGUUAAAGUGGGUUUUUGGGAAGCCUAUUGGCUCCCUAAACUUCUGGUCGCAUGUUAUCAGCAAGUGCUUGGGGGUUAUUUUAAUC
..((((.(((....(((((((((((......(((.....))).(((((..((((.(((....))))))).))))))))))))((.((....))))...))))))).))))......... ( -36.40)
>DroSec_CAF1 18660 119 - 1
GCGGCUGCCAUCGAAGCGGAUCAGAUGUACUACUGGUAUUGUGGGUUUUUGGGAAGCCUACUGGCUCCCUAAACUUCUGGUCGCAUGUUAUCAGCAAGUACUUGGGGGUUAUUUUAAUC
..((((.(((.....(((.((((((....((((.......))))((((..((((.(((....))))))).)))).))))))))).(((.....)))......))).))))......... ( -36.20)
>DroSim_CAF1 18735 115 - 1
----CUGCCAUCGAAGCGGAUCAGAUGUACUACUGGUAUUGUGGGUUUUUGGGGAGCCUACUGGCUCCCUAAACUUUUGGUCGCAUGUUAUCAGCAACUGCUUGGGGGUUAUUUUAAUC
----..(((.((.((((((((((((.((.((((.......))))....((((((((((....)))))))))))).)))))))((.((....))))...))))).))))).......... ( -41.60)
>consensus
GC_GCUGCCAUCGAAGCGGAUCAGAUGUACUACUGGUAUUGUGGGUUUUUGGGAAGCCUACUGGCUCCCUAAACUUCUGGUCGCAUGUUAUCAGCAAGUGCUUGGGGGUUAUUUUAAUC
......(((.((.((((((((((((....((((.......))))((((..(((.((((....))))))).)))).)))))))((.((....))))...))))).))))).......... (-33.82 = -34.27 +   0.45)

alignment

secondary structure

dotplot

Window 0

Location	2,237,775 – 2,237,867
Length	92
Sequences	3
Columns	92
Reading direction	forward
Mean pairwise identity	90.94
Mean single sequence MFE	-28.44
Consensus MFE	-24.49
Energy contribution	-24.27
Covariance contribution	-0.22
Combinations/Pair	1.05
Mean z-score	-2.18
Structure conservation index	0.86
SVM decision value	0.56
SVM RNA-class probability	0.780945
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2237775 92 + 23771897
CCAGAAGUUUAGGGAGCCAAUAGGCUUCCCAAAAACCCACUUUAACAGUUGUACAUCUGAUCCGCUUCGAUGGCAGCUGCACUCGUUGGGUA
.......(((.(((((((....))))))).))).(((((......(((((((.((((.((......))))))))))))).......))))). ( -31.32)
>DroSec_CAF1 18699 92 + 1
CCAGAAGUUUAGGGAGCCAGUAGGCUUCCCAAAAACCCACAAUACCAGUAGUACAUCUGAUCCGCUUCGAUGGCAGCCGCACUCGUUGGGUA
.......(((.(((((((....))))))).))).(((((....((.(((....((((.((......))))))((....))))).))))))). ( -25.20)
>DroSim_CAF1 18774 87 + 1
CCAAAAGUUUAGGGAGCCAGUAGGCUCCCCAAAAACCCACAAUACCAGUAGUACAUCUGAUCCGCUUCGAUGGCAG-----CUCGUUGGGUA
.......(((.(((((((....))))))).))).(((((....((.(((.((.((((.((......)))))))).)-----)).))))))). ( -28.80)
>consensus
CCAGAAGUUUAGGGAGCCAGUAGGCUUCCCAAAAACCCACAAUACCAGUAGUACAUCUGAUCCGCUUCGAUGGCAGC_GCACUCGUUGGGUA
.......(((.(((((((....))))))).))).((((((.....(((........)))....(((.....)))..........).))))). (-24.49 = -24.27 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:10 2006