Locus 289

Sequence ID	3L_DroMel_CAF1
Location	828,040 – 828,191
Length	151
Max. P	0.843851

overview

Window 1

Location	828,040 – 828,151
Length	111
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.33
Mean single sequence MFE	-49.10
Consensus MFE	-30.12
Energy contribution	-30.82
Covariance contribution	0.70
Combinations/Pair	1.19
Mean z-score	-3.04
Structure conservation index	0.61
SVM decision value	0.48
SVM RNA-class probability	0.753038
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 828040 111 - 23771897
UUCUCAUUCUCAUCCUGCAGGCGGCGGUCGGAGGAGAGUCCUCCG---------GCUGCUGAUUCCUGCAGCUGCUGUACCUGCUCGCCCUUGUACUCCAAAACGGCCAGGGUGAGUUCC
..............((((((((((((((((((((.....))))))---------)))))))...)))))))...........(((((((((.((...........)).)))))))))... ( -51.80)
>DroSec_CAF1 2324 111 - 1
UUCUCAUUCUCGUCCUGCAGGCGGCGGUCGGAGGAGAGUCCUCCG---------GCUGGCGAUUCCUGCAGCCGCUGUACCUGCUCGCCCUUGUACUCCAAAACGGCCAGGGUGAGCUCC
..........((..(((((((((.((((((((((.....))))))---------)))).))...))))))).))........(((((((((.((...........)).)))))))))... ( -52.00)
>DroSim_CAF1 2373 111 - 1
UUCUCAUUCUCGUCCUGCAGGCGGCGGUCGGAGGAGAGUCCUCCG---------GCUGGCGAUUCCUGCAGCCGCUGUACCUGCUCGCCCUUGUACUCCAAAACGGCCAGGGUGAGCUCC
..........((..(((((((((.((((((((((.....))))))---------)))).))...))))))).))........(((((((((.((...........)).)))))))))... ( -52.00)
>DroEre_CAF1 3345 111 - 1
UUCUCAUUCUCGUCCUGCAGGCGGCGGUCGGAGGAGGUUCCUCCG---------CUUGCUGCUUCCUGCAACUGCUGAACCUGCUCGCCCUUGUACUCCAAAACGGCGAGGGUGAGCUCC
......(((......((((((.((((((((((((.....))))))---------...)))))).))))))......)))...((((((((((((...........))))))))))))... ( -51.50)
>DroYak_CAF1 2798 111 - 1
UUCUCAUUCUCGUCCUGCAGUCUACGCUCGGCGGAGACUCCACCG---------CCACCCGCCUCCUGCAGCCGCUGCACCUGCUCGCCCUUGUACUCCAGGACGGCGAGCGUGAGCUCC
.........((((((((.((((...((..(((((........)))---------))....((....(((((...)))))...))..))....).))).)))))))).((((....)))). ( -40.20)
>DroAna_CAF1 2963 120 - 1
UUCUCAUUUUCGUCCUGCAAUCGCCGACCACUGGAGGCUCCACUGGAGGCGCCGCCGGACUGCUCCUGCAAUUUCUGCACCUGCUCGCCCUUGUACUCCAAAACGGCGAGGGUGAGCUCC
...........((((.((...((((..(((.(((.....))).))).))))..)).))))......((((.....))))...((((((((((((...........))))))))))))... ( -47.10)
>consensus
UUCUCAUUCUCGUCCUGCAGGCGGCGGUCGGAGGAGAGUCCUCCG_________CCUGCCGAUUCCUGCAGCCGCUGUACCUGCUCGCCCUUGUACUCCAAAACGGCCAGGGUGAGCUCC
..............(((((((...((.(((((((.....))))))............).))...)))))))...........(((((((((.((...........)).)))))))))... (-30.12 = -30.82 +   0.70)

alignment

secondary structure

dotplot

Window 2

Location	828,080 – 828,191
Length	111
Sequences	6
Columns	111
Reading direction	forward
Mean pairwise identity	81.14
Mean single sequence MFE	-40.00
Consensus MFE	-29.90
Energy contribution	-30.60
Covariance contribution	0.70
Combinations/Pair	1.21
Mean z-score	-1.23
Structure conservation index	0.75
SVM decision value	0.07
SVM RNA-class probability	0.567034
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 828080 111 + 23771897
GUACAGCAGCUGCAGGAAUCAGCAGCCGGAGGACUCUCCUCCGACCGCCGCCUGCAGGAUGAGAAUGAGAAGCUGAAGCGAAUGCUCCAGAAGUUGGAGGACGAACGCGAU
...((((..(((((((.....((.(.((((((.....)))))).).))..))))))).((....)).....))))..(((..(.((((((...)))))).)....)))... ( -39.90)
>DroSec_CAF1 2364 111 + 1
GUACAGCGGCUGCAGGAAUCGCCAGCCGGAGGACUCUCCUCCGACCGCCGCCUGCAGGACGAGAAUGAGAAGCUGAAGCGAAUGCUCCAGAACCUGGAGGACGAACGCGAU
...((((..(((((((....((..(.((((((.....)))))).).))..)))))))..(........)..))))..(((..(.((((((...)))))).)....)))... ( -41.50)
>DroSim_CAF1 2413 111 + 1
GUACAGCGGCUGCAGGAAUCGCCAGCCGGAGGACUCUCCUCCGACCGCCGCCUGCAGGACGAGAAUGAGAAGCUGAAGCGAAUGCUCCAGAACCUGGAGGACGAACGCGAU
...((((..(((((((....((..(.((((((.....)))))).).))..)))))))..(........)..))))..(((..(.((((((...)))))).)....)))... ( -41.50)
>DroEre_CAF1 3385 111 + 1
GUUCAGCAGUUGCAGGAAGCAGCAAGCGGAGGAACCUCCUCCGACCGCCGCCUGCAGGACGAGAAUGAGAAGCUGAAGCGAAUGCUCCAGAGGCUGGAGGACGAACGCGAU
.((((((..(((((((..((.(....((((((.....)))))).).))..)))))))..(........)..))))))(((..(.((((((...)))))).)....)))... ( -42.40)
>DroYak_CAF1 2838 111 + 1
GUGCAGCGGCUGCAGGAGGCGGGUGGCGGUGGAGUCUCCGCCGAGCGUAGACUGCAGGACGAGAAUGAGAAGCUGAAGCGAAUGCUCCAGAAGCUGGAGGACGAACGCGAU
...((((..((((((...(((..((((((........))))))..)))...))))))..(........)..))))..(((..(.((((((...)))))).)....)))... ( -42.60)
>DroPer_CAF1 3306 99 + 1
GCGGCCCAACUACUAGAACAGGGUGGCAGU------------GGCGGACGGCUGCAGGGCGAGAACGAGAAGCUCAAGCGAAUGCUUCAGAGGCUGGAGGAUGAGCGCGAU
((.((((.............)))).)).(.------------.((.....))..).((((...........))))..(((.((.((((((...)))))).))...)))... ( -32.12)
>consensus
GUACAGCAGCUGCAGGAAUCGGCAGCCGGAGGACUCUCCUCCGACCGCCGCCUGCAGGACGAGAAUGAGAAGCUGAAGCGAAUGCUCCAGAAGCUGGAGGACGAACGCGAU
...((((..(((((((..........((((((.....)))))).......)))))))..(........)..))))..(((..(.((((((...)))))).)....)))... (-29.90 = -30.60 +   0.70)

alignment

secondary structure

dotplot

Window 3

Location	828,080 – 828,191
Length	111
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	81.14
Mean single sequence MFE	-41.41
Consensus MFE	-27.04
Energy contribution	-29.32
Covariance contribution	2.28
Combinations/Pair	1.18
Mean z-score	-2.25
Structure conservation index	0.65
SVM decision value	0.76
SVM RNA-class probability	0.843851
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 828080 111 - 23771897
AUCGCGUUCGUCCUCCAACUUCUGGAGCAUUCGCUUCAGCUUCUCAUUCUCAUCCUGCAGGCGGCGGUCGGAGGAGAGUCCUCCGGCUGCUGAUUCCUGCAGCUGCUGUAC
...(((...((.(((((.....))))).)).)))..((((..............((((((((((((((((((((.....)))))))))))))...)))))))..))))... ( -48.99)
>DroSec_CAF1 2364 111 - 1
AUCGCGUUCGUCCUCCAGGUUCUGGAGCAUUCGCUUCAGCUUCUCAUUCUCGUCCUGCAGGCGGCGGUCGGAGGAGAGUCCUCCGGCUGGCGAUUCCUGCAGCCGCUGUAC
...(((..((......(((..(((((((....)))))))..)))......))..(((((((((.((((((((((.....)))))))))).))...))))))).)))..... ( -49.80)
>DroSim_CAF1 2413 111 - 1
AUCGCGUUCGUCCUCCAGGUUCUGGAGCAUUCGCUUCAGCUUCUCAUUCUCGUCCUGCAGGCGGCGGUCGGAGGAGAGUCCUCCGGCUGGCGAUUCCUGCAGCCGCUGUAC
...(((..((......(((..(((((((....)))))))..)))......))..(((((((((.((((((((((.....)))))))))).))...))))))).)))..... ( -49.80)
>DroEre_CAF1 3385 111 - 1
AUCGCGUUCGUCCUCCAGCCUCUGGAGCAUUCGCUUCAGCUUCUCAUUCUCGUCCUGCAGGCGGCGGUCGGAGGAGGUUCCUCCGCUUGCUGCUUCCUGCAACUGCUGAAC
...(((...((.((((((...)))))).)).)))((((((...............((((((.((((((((((((.....))))))...)))))).))))))...)))))). ( -45.77)
>DroYak_CAF1 2838 111 - 1
AUCGCGUUCGUCCUCCAGCUUCUGGAGCAUUCGCUUCAGCUUCUCAUUCUCGUCCUGCAGUCUACGCUCGGCGGAGACUCCACCGCCACCCGCCUCCUGCAGCCGCUGCAC
...............((((..(((((((....)))))))...............((((((....((...(((((........)))))...))....))))))..))))... ( -32.60)
>DroPer_CAF1 3306 99 - 1
AUCGCGCUCAUCCUCCAGCCUCUGAAGCAUUCGCUUGAGCUUCUCGUUCUCGCCCUGCAGCCGUCCGCC------------ACUGCCACCCUGUUCUAGUAGUUGGGCCGC
.............((((((..(((.((((...((..((((.....))))..))...((((..(....).------------.)))).....)))).)))..)))))).... ( -21.50)
>consensus
AUCGCGUUCGUCCUCCAGCUUCUGGAGCAUUCGCUUCAGCUUCUCAUUCUCGUCCUGCAGGCGGCGGUCGGAGGAGAGUCCUCCGCCUGCCGAUUCCUGCAGCCGCUGUAC
...(((...((.((((((...)))))).)).)))..((((..............(((((((((.(((.((((((.....)))))).))).))...)))))))..))))... (-27.04 = -29.32 +   2.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:25 2006