Locus 7633

Sequence ID	3R_DroMel_CAF1
Location	20,446,337 – 20,446,466
Length	129
Max. P	0.605801

overview

Window 4

Location	20,446,337 – 20,446,431
Length	94
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	82.43
Mean single sequence MFE	-31.59
Consensus MFE	-20.60
Energy contribution	-22.10
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-1.87
Structure conservation index	0.65
SVM decision value	0.15
SVM RNA-class probability	0.605801
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20446337 94 + 27905053
UGGCCACACCGGUGGCCUCGCCAU------CGCCCUCGUCGUCACCCUCCUCAUCGACGGUGGAUCACAUACCGCCGGCAUCUCCGGCUACGCCCGCAUC
.((((((....))))))..((...------.(((...((((.............))))(((((........))))))))......(((...))).))... ( -32.22)
>DroSec_CAF1 29651 94 + 1
UGGCCACACCGGUGGCCUCGCCAU------CGCCCUCGUCGUCACCCUCCUCAUCGACGGUGGAUCACAUACCGCCGGCAUCUCCGGCUCCGCCCGCAUC
.((((((....)))))).......------.((....((((.............))))((((((.........(((((.....))))))))))).))... ( -32.92)
>DroSim_CAF1 29472 94 + 1
UGGCCACACCGGUGGCCUCGCCAU------CGCCCUCGUCGUCACCCUCCUCAUCGACGGUGGAUCACAUACCGCCGGCAUCUCCGGCUCCGCCCGCAUC
.((((((....)))))).......------.((....((((.............))))((((((.........(((((.....))))))))))).))... ( -32.92)
>DroEre_CAF1 28551 94 + 1
UGGCCACACCGGUGGCCUCGCCAU------CGCCCUCAUCGUCGCCCUCCUCAUCGACGGUGGAUCACAUACCGCCAGCUUCUCCGGCACCGCCGGCAUC
.((((((....))))))..(((..------.((.......((((..........))))(((((........))))).))......(((...))))))... ( -32.70)
>DroYak_CAF1 29926 94 + 1
UGGCCACACCGGUGGCCUCGCCAU------CGCCCUCGUCGUCGCCCUCCUCAUCGACGCUGGAUCACAUGCCGCCAGCUUCGCCGGCAACGCCGGCUUC
.(((.(((((((((((...)))))------)).....)).)).))).........((.(((((..(....)...))))).))((((((...))))))... ( -34.30)
>DroAna_CAF1 28588 82 + 1
UAGCCACGCCGGUGGCAUCACCAUCCGCCUCGCCCUCGUCGUCGCCCUCGUCCUCCACCGUGGACG------------------UGGCACCCCCCGCCUC
..(((((((.(((((.....))))).)).....................((((........)))))------------------))))............ ( -24.50)
>consensus
UGGCCACACCGGUGGCCUCGCCAU______CGCCCUCGUCGUCACCCUCCUCAUCGACGGUGGAUCACAUACCGCCGGCAUCUCCGGCACCGCCCGCAUC
.((((((....))))))..............(((...((((.............))))(((((........))))).........)))............ (-20.60 = -22.10 +   1.50)

alignment

secondary structure

dotplot

Window 5

Location	20,446,365 – 20,446,466
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	91.09
Mean single sequence MFE	-42.98
Consensus MFE	-34.50
Energy contribution	-34.22
Covariance contribution	-0.28
Combinations/Pair	1.13
Mean z-score	-1.38
Structure conservation index	0.80
SVM decision value	0.04
SVM RNA-class probability	0.551854
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20446365 101 - 27905053
UGGACGCGACGGCGGGCGACGGAGGCGGAGCUGGUGAUGCGGGCGUAGCCGGAGAUGCCGGCGGUAUGUGAUCCACCGUCGAUGAGGAGGGUGACGACGAG
.(((((((((.((.((((.(...(((...(((.(.....).)))...)))...).)))).)).)).)))).)))(((.((......)).)))......... ( -39.80)
>DroSec_CAF1 29679 101 - 1
UGGACGCGACGGCGGGCGACGGAGGCAGAGCUGGUGAUGCGGGCGGAGCCGGAGAUGCCGGCGGUAUGUGAUCCACCGUCGAUGAGGAGGGUGACGACGAG
.(((((((((.((.((((.(...(((...(((.(.....).)))...)))...).)))).)).)).)))).)))(((.((......)).)))......... ( -38.70)
>DroSim_CAF1 29500 101 - 1
UGGACGCGACGGCGGGCGACGGAGGCGGAGCUGGUGAUGCGGGCGGAGCCGGAGAUGCCGGCGGUAUGUGAUCCACCGUCGAUGAGGAGGGUGACGACGAG
.(((((((((.((.((((.(...(((...(((.(.....).)))...)))...).)))).)).)).)))).)))(((.((......)).)))......... ( -39.80)
>DroEre_CAF1 28579 101 - 1
UGGACGCGACGGCGGGCGAUGGGGGCGGCGCUGGCGAUGCCGGCGGUGCCGGAGAAGCUGGCGGUAUGUGAUCCACCGUCGAUGAGGAGGGCGACGAUGAG
((((((((((.((.(((......((((.(((((((...))))))).))))......))).)).)).)))).)))).(((((..........)))))..... ( -45.90)
>DroYak_CAF1 29954 101 - 1
UGGACGCGACGGCCGGCGAUGGUGGCGGUGCUGGCGAAGCCGGCGUUGCCGGCGAAGCUGGCGGCAUGUGAUCCAGCGUCGAUGAGGAGGGCGACGACGAG
((((((((.(.((((((..((.((((..(((((((...)))))))..)))).))..)))))).)..)))).)))).(((((.((.......)).))))).. ( -50.70)
>consensus
UGGACGCGACGGCGGGCGACGGAGGCGGAGCUGGUGAUGCGGGCGGAGCCGGAGAUGCCGGCGGUAUGUGAUCCACCGUCGAUGAGGAGGGUGACGACGAG
((((((((((.((.((((.(...(((...(((.((...)).)))...)))...).)))).)).)).)))).)))).(((((.............))))).. (-34.50 = -34.22 +  -0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:50:47 2006