Locus 802

Sequence ID	3L_DroMel_CAF1
Location	2,405,138 – 2,405,237
Length	99
Max. P	0.999127

overview

Window 4

Location	2,405,138 – 2,405,237
Length	99
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	94.42
Mean single sequence MFE	-33.48
Consensus MFE	-28.76
Energy contribution	-28.64
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-2.76
Structure conservation index	0.86
SVM decision value	3.39
SVM RNA-class probability	0.999127
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2405138 99 + 23771897
ACAGCCAUUUUUGGCCAACAUUUUUGGGUGCACUCAUCCAUGAUUCGUGCACCAGCAGUCGACGACAAUAAUUCUUUGUCAAUG--UGGCAUCGAAAGAUA
...(((((..(((((...((....))(((((((..(((...)))..)))))))....))))).(((((.......)))))...)--))))(((....))). ( -31.10)
>DroSec_CAF1 32902 101 + 1
ACAGCCAUUUUUGGCCAGCGUUUUUGGGUGCACUCAUCCAUGAUUCGUGCACCAGCAGUCGACGACAAUGAGUCUUUGUCAAUGUGUGGCAUCGAAAGAUA
...(((((..(((((..(((......(((((((..(((...)))..)))))))......)).)(((.....)))...)))))...)))))(((....))). ( -32.60)
>DroSim_CAF1 32473 101 + 1
ACAGCCAUUUUUGGCCAGCGUUUUUGGGUGUACUCAUCCAUGAUUCGUGCACCAGCAGUCGCCGACAAUGAGACUUUGUCAAUGUGUGGCAUCGAAAGAUA
...(((((....(((..(((..((((((((....)))))).))..)))((....))....)))(((((.......))))).....)))))(((....))). ( -31.40)
>DroEre_CAF1 32077 99 + 1
ACAGCCAUUUUUGGCUGGCGUUUUUGGGUGCACUCAUCCAUGAUUCGUGCACCACCAGUCGACGACAAUGAGUCUUUGUCAAUG--UGGCAUCGAAAGAUA
...(((((..((((((((((....))(((((((..(((...)))..))))))).)))))))).(((((.......)))))...)--))))(((....))). ( -37.50)
>DroYak_CAF1 32777 99 + 1
ACAGCCAUUUUUGGCUGGCGUUUUUGGGUGCACUCAUCCAUGAUUCGUGCACCAGCAGUCGACGACAAUGAGUCUUUGUCAAUG--UGGCAUCGAAAGAUA
...(((((..(((((((.((....))(((((((..(((...)))..)))))))..))))))).(((((.......)))))...)--))))(((....))). ( -34.80)
>consensus
ACAGCCAUUUUUGGCCAGCGUUUUUGGGUGCACUCAUCCAUGAUUCGUGCACCAGCAGUCGACGACAAUGAGUCUUUGUCAAUG__UGGCAUCGAAAGAUA
...((((...(((((...((....))(((((((..(((...)))..)))))))....))))).(((((.......)))))......))))(((....))). (-28.76 = -28.64 +  -0.12)

alignment

secondary structure

dotplot

Window 5

Location	2,405,138 – 2,405,237
Length	99
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	94.42
Mean single sequence MFE	-29.30
Consensus MFE	-25.18
Energy contribution	-24.78
Covariance contribution	-0.40
Combinations/Pair	1.12
Mean z-score	-1.91
Structure conservation index	0.86
SVM decision value	1.86
SVM RNA-class probability	0.980404
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2405138 99 - 23771897
UAUCUUUCGAUGCCA--CAUUGACAAAGAAUUAUUGUCGUCGACUGCUGGUGCACGAAUCAUGGAUGAGUGCACCCAAAAAUGUUGGCCAAAAAUGGCUGU
...........((((--....(((((.......)))))((((((....(((((((..(((...)))..))))))).......))))))......))))... ( -29.10)
>DroSec_CAF1 32902 101 - 1
UAUCUUUCGAUGCCACACAUUGACAAAGACUCAUUGUCGUCGACUGCUGGUGCACGAAUCAUGGAUGAGUGCACCCAAAAACGCUGGCCAAAAAUGGCUGU
......((((((....(((.(((.......))).))))))))).....(((((((..(((...)))..)))))))..........(((((....))))).. ( -27.90)
>DroSim_CAF1 32473 101 - 1
UAUCUUUCGAUGCCACACAUUGACAAAGUCUCAUUGUCGGCGACUGCUGGUGCACGAAUCAUGGAUGAGUACACCCAAAAACGCUGGCCAAAAAUGGCUGU
......((((((.....))))))...((((.....(((((((......((((.((..(((...)))..)).))))......))))))).......)))).. ( -24.70)
>DroEre_CAF1 32077 99 - 1
UAUCUUUCGAUGCCA--CAUUGACAAAGACUCAUUGUCGUCGACUGGUGGUGCACGAAUCAUGGAUGAGUGCACCCAAAAACGCCAGCCAAAAAUGGCUGU
.(((..((((((..(--((.(((.......))).)))))))))..)))(((((((..(((...)))..))))))).........((((((....)))))). ( -33.50)
>DroYak_CAF1 32777 99 - 1
UAUCUUUCGAUGCCA--CAUUGACAAAGACUCAUUGUCGUCGACUGCUGGUGCACGAAUCAUGGAUGAGUGCACCCAAAAACGCCAGCCAAAAAUGGCUGU
......((((((..(--((.(((.......))).))))))))).....(((((((..(((...)))..))))))).........((((((....)))))). ( -31.30)
>consensus
UAUCUUUCGAUGCCA__CAUUGACAAAGACUCAUUGUCGUCGACUGCUGGUGCACGAAUCAUGGAUGAGUGCACCCAAAAACGCUGGCCAAAAAUGGCUGU
......((((((.....))))))....(((........))).......(((((((..(((...)))..))))))).........((((((....)))))). (-25.18 = -24.78 +  -0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:34 2006