Locus 3058

Sequence ID	2R_DroMel_CAF1
Location	10,522,627 – 10,522,724
Length	97
Max. P	0.628386

overview

Window 5

Location	10,522,627 – 10,522,724
Length	97
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	95.69
Mean single sequence MFE	-22.76
Consensus MFE	-19.96
Energy contribution	-20.24
Covariance contribution	0.28
Combinations/Pair	1.08
Mean z-score	-1.24
Structure conservation index	0.88
SVM decision value	0.09
SVM RNA-class probability	0.576243
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10522627 97 + 20766785
UUGCCAUGCCUGUGUAAAUAAUGCCUUUAUUAUUUCGCUUGAUAUCCAC-UCGCAGCGGAUAAAAAUGGCAGGGCAACGAAACCACAACAAGCAGCAG
(((((.((((.(((.((((((((....)))))))))))....(((((.(-.....).))))).....)))).)))))..................... ( -24.70)
>DroSec_CAF1 23535 97 + 1
UUGCCAUGCCUGUGUAAAUAAUGCCUUUAUUAUUUCGCUUGAUAUCCAC-UCGCACCGGAUAAAAAUGGCAGGGCAACGAAACCACAACAAGCAGCAG
(((((.((((.(((.((((((((....)))))))))))....(((((..-.......))))).....)))).)))))..................... ( -23.30)
>DroSim_CAF1 19654 98 + 1
UUGCCAUGCCUGUGUAAAUAAUGCCUUUAUUAUUUCGCUUGAUAUCCACCUCGCAGCGGAUAAAAAUGGCAGGGCAACGAAACCACAACAAGCAGCAG
(((((.((((.(((.((((((((....)))))))))))....(((((.(......).))))).....)))).)))))..................... ( -24.20)
>DroEre_CAF1 25838 97 + 1
UUGCCUCGCCUGUGUAAAUAAUGCCUUUAUUAUUUCGCUUGAUAUCCAC-UAACAGCAGAUAAAAAUGGCAGGGCAACGCAACCACAACAAGCAGCAG
(((((..(((.(((.((((((((....)))))))))))....((((..(-.....)..)))).....)))..))))).((...........))..... ( -20.40)
>DroYak_CAF1 23752 97 + 1
UUGCCAUGCCUGUGUAAAUAAUGCCUUUAUUAUUUUGCUUGAUAUCCAC-UCGCAGCAGAUAAAAAUGGCAGGGCAGCGAAACCACAACAAGCAGCAG
.(((..(((.(((((......((((.((.((((((.((((((.......-))).))))))))).)).))))((.........)))).))).)))))). ( -21.20)
>consensus
UUGCCAUGCCUGUGUAAAUAAUGCCUUUAUUAUUUCGCUUGAUAUCCAC_UCGCAGCGGAUAAAAAUGGCAGGGCAACGAAACCACAACAAGCAGCAG
(((((.((((.(((.((((((((....)))))))))))....(((((..........))))).....)))).)))))..................... (-19.96 = -20.24 +   0.28)

alignment

secondary structure

dotplot

Window 6

Location	10,522,627 – 10,522,724
Length	97
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	95.69
Mean single sequence MFE	-26.34
Consensus MFE	-25.26
Energy contribution	-25.06
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-1.09
Structure conservation index	0.96
SVM decision value	0.19
SVM RNA-class probability	0.628386
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 10522627 97 - 20766785
CUGCUGCUUGUUGUGGUUUCGUUGCCCUGCCAUUUUUAUCCGCUGCGA-GUGGAUAUCAAGCGAAAUAAUAAAGGCAUUAUUUACACAGGCAUGGCAA
..((..(.....)..))....(((((.((((.....(((((((.....-)))))))....(.((((((((......))))))).).).)))).))))) ( -27.90)
>DroSec_CAF1 23535 97 - 1
CUGCUGCUUGUUGUGGUUUCGUUGCCCUGCCAUUUUUAUCCGGUGCGA-GUGGAUAUCAAGCGAAAUAAUAAAGGCAUUAUUUACACAGGCAUGGCAA
.((((((((((.(((((((((((......((((((.(((...))).))-))))......))))))))(((((.....))))))))))))))..)))). ( -24.90)
>DroSim_CAF1 19654 98 - 1
CUGCUGCUUGUUGUGGUUUCGUUGCCCUGCCAUUUUUAUCCGCUGCGAGGUGGAUAUCAAGCGAAAUAAUAAAGGCAUUAUUUACACAGGCAUGGCAA
..((..(.....)..))....(((((.((((.....((((((((....))))))))....(.((((((((......))))))).).).)))).))))) ( -29.10)
>DroEre_CAF1 25838 97 - 1
CUGCUGCUUGUUGUGGUUGCGUUGCCCUGCCAUUUUUAUCUGCUGUUA-GUGGAUAUCAAGCGAAAUAAUAAAGGCAUUAUUUACACAGGCGAGGCAA
..((.(((......))).)).(((((.((((.....((((..(.....-)..))))....(.((((((((......))))))).).).)))).))))) ( -25.30)
>DroYak_CAF1 23752 97 - 1
CUGCUGCUUGUUGUGGUUUCGCUGCCCUGCCAUUUUUAUCUGCUGCGA-GUGGAUAUCAAGCAAAAUAAUAAAGGCAUUAUUUACACAGGCAUGGCAA
..((..(.....)..)).....((((.((((.....((((..(.....-)..)))).......(((((((......))))))).....)))).)))). ( -24.50)
>consensus
CUGCUGCUUGUUGUGGUUUCGUUGCCCUGCCAUUUUUAUCCGCUGCGA_GUGGAUAUCAAGCGAAAUAAUAAAGGCAUUAUUUACACAGGCAUGGCAA
..((..(.....)..)).....((((.((((.....(((((((......))))))).......(((((((......))))))).....)))).)))). (-25.26 = -25.06 +  -0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:15 2006