Locus 6974

Sequence ID	X_DroMel_CAF1
Location	17,464,396 – 17,464,538
Length	142
Max. P	0.996774

overview

Window 0

Location	17,464,396 – 17,464,510
Length	114
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	74.22
Mean single sequence MFE	-28.44
Consensus MFE	-14.60
Energy contribution	-18.72
Covariance contribution	4.12
Combinations/Pair	1.15
Mean z-score	-2.91
Structure conservation index	0.51
SVM decision value	2.75
SVM RNA-class probability	0.996774
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17464396 114 + 22224390
CAUCAGUCUUCGGGUUUUCGCCGAUUUUUACUUGUUUGGCCGCAUCAG-CCGGC-----UCCUCCUCUCCUGAAGCCUCCCCUCCGGAUUCCUUGUCAUCCGAUACGGAUUCCUCGACUU
....((((...(((.....(((((...........))))).((.((((-..((.-----....))....)))).))...)))...(((.(((.((((....)))).))).)))..)))). ( -29.40)
>DroSec_CAF1 6606 114 + 1
CAUCAGGUUGCGGUUUUUCGCCGAAUUUCACUUGUUUGGCCGCAUCAG-CCGGC-----UCUUCCUCUCCUGAUGCCUCGCCUCCUGAUUCCUUGUCAUCCGAUACGGAUUCCUCCACUU
.((((((..((((......(((((((.......))))))).(((((((-..((.-----....))....))))))).))))..))))))(((.((((....)))).)))........... ( -36.40)
>DroSim_CAF1 6715 114 + 1
CAUCAGGCUGCGGUUUUUCGCCGAAUUUCACUUGUUUGGCCGCAUCAG-CCGGC-----UCUUCCUCUCCUGAUGCCUCGCCUCCUGAUUCCUUGUCAUCCGAUACGGAUUCCUCCACUU
.((((((..((((......(((((((.......))))))).(((((((-..((.-----....))....))))))).))))..))))))(((.((((....)))).)))........... ( -35.40)
>DroAna_CAF1 8294 111 + 1
CAUCAGACUUC-----UUCUCC----UCAACCUCUUUGGAACUAUCGGGCUGGCACACAUCUUCCUCUCCUGCCUUAUCCUUCUCAGAUUUCUUGGCAACUACAAUCGAAUCAUCUUCAU
.....((.(((-----......----..........(((((..((.((((.((...............)).)))).))..))).))((((....(....)...)))))))))........ ( -12.56)
>consensus
CAUCAGGCUGCGGUUUUUCGCCGAAUUUCACUUGUUUGGCCGCAUCAG_CCGGC_____UCUUCCUCUCCUGAUGCCUCCCCUCCUGAUUCCUUGUCAUCCGAUACGGAUUCCUCCACUU
.((((((..((((......(((((((.......))))))).(((((((...((..........))....))))))).))))..))))))(((.((((....)))).)))........... (-14.60 = -18.72 +   4.12)

alignment

secondary structure

dotplot

Window 1

Location	17,464,436 – 17,464,538
Length	102
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	75.43
Mean single sequence MFE	-19.21
Consensus MFE	-6.92
Energy contribution	-8.70
Covariance contribution	1.78
Combinations/Pair	1.17
Mean z-score	-2.12
Structure conservation index	0.36
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17464436 102 + 22224390
CGCAUCAG-CCGGC-----UCCUCCUCUCCUGAAGCCUCCCCUCCGGAUUCCUUGUCAUCCGAUACGGAUUCCUCGACUUCUGAGCCA------------GAUUUCUCAUCAUAUCUAUC
.((.((((-..(((-----(.(.........).))))........(((.(((.((((....)))).))).))).......)))))).(------------(((..........))))... ( -21.80)
>DroSec_CAF1 6646 102 + 1
CGCAUCAG-CCGGC-----UCUUCCUCUCCUGAUGCCUCGCCUCCUGAUUCCUUGUCAUCCGAUACGGAUUCCUCCACUUCUGAGCCA------------GAUUUAUCAUCAUAUCUGUC
.(((((((-..((.-----....))....)))))))((((......((.(((.((((....)))).))).)).........)))).((------------(((..........))))).. ( -20.36)
>DroSim_CAF1 6755 102 + 1
CGCAUCAG-CCGGC-----UCUUCCUCUCCUGAUGCCUCGCCUCCUGAUUCCUUGUCAUCCGAUACGGAUUCCUCCACUUCUGAGCCA------------GAUUUAUCAUCAUAUCUGUC
.(((((((-..((.-----....))....)))))))((((......((.(((.((((....)))).))).)).........)))).((------------(((..........))))).. ( -20.36)
>DroEre_CAF1 14687 102 + 1
CACAUCAU-CCGGC-----UCCUCCUCUCCUGAUGCCUCUCCUCCAGAUUCCUUGUAGUCCGAUACGGAUGCCUCCAUUUCUGAUCCA------------GAUUUCUCAUCAUAUCCGUC
......((-(.(((-----(.(.......(((..(......)..))).......).)))).)))(((((((........((((...))------------))..........))))))). ( -13.91)
>DroYak_CAF1 6759 102 + 1
CGCAUCAU-CCGAC-----UCCUCCUCUCCUGAUGCUUCCUCUCCUGAUUCCUUGUCGUCCGAUAGGGAUUCCUCCAUUUCUGAUCCA------------GAUUUCUCAUCAUAUUCGCC
.((((((.-..((.-----......))...))))))..........((.((((((((....)))))))).)).......((((...))------------)).................. ( -19.40)
>DroAna_CAF1 8325 120 + 1
ACUAUCGGGCUGGCACACAUCUUCCUCUCCUGCCUUAUCCUUCUCAGAUUUCUUGGCAACUACAAUCGAAUCAUCUUCAUCUGAAUCAUCUGACUCUGAAGAUUCCUCCUCCGAAUUGUC
....(((((..((((...............)))).....((((((((((.....(....).......((.(((........))).))))))))....))))........)))))...... ( -19.46)
>consensus
CGCAUCAG_CCGGC_____UCCUCCUCUCCUGAUGCCUCCCCUCCUGAUUCCUUGUCAUCCGAUACGGAUUCCUCCACUUCUGAGCCA____________GAUUUCUCAUCAUAUCUGUC
.(((((((...((..........))....)))))))..........((.(((.((((....)))).))).))................................................ ( -6.92 =  -8.70 +   1.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:27:05 2006