Locus 3921

Sequence ID	X_DroMel_CAF1
Location	10,480,026 – 10,480,194
Length	168
Max. P	0.999666

overview

Window 9

Location	10,480,026 – 10,480,118
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	97.61
Mean single sequence MFE	-30.90
Consensus MFE	-29.70
Energy contribution	-29.90
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-1.74
Structure conservation index	0.96
SVM decision value	2.18
SVM RNA-class probability	0.989681
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10480026 92 + 22224390
UAAAGCUGGAGCAAUAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAAAACA
....((((.(((((.......))))).))))......(((.((((..(((((((((.(......).).))))))))...)))).)))..... ( -31.00)
>DroSec_CAF1 10871 92 + 1
UAAAGCUGGAGCAAUAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAGAACA
....((((.(((((.......))))).))))......(((.((((..(((((((((.(......).).))))))))...)))).)))..... ( -31.00)
>DroSim_CAF1 11085 92 + 1
UAAAGCUGGAGCAAUAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAAAACA
....((((.(((((.......))))).))))......(((.((((..(((((((((.(......).).))))))))...)))).)))..... ( -31.00)
>DroEre_CAF1 12156 92 + 1
UGAAGCUGGAGCAAUACAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAAAACA
.((.((..((((((.......)))))..(((((....((((.((((...)))).))))))))))..))..)).((((....))))....... ( -31.10)
>DroYak_CAF1 12704 92 + 1
UGAAGCUGGAGCAAUAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGACGCUAUGGCGCAAAAACA
....((((.(((((.......))))).))))....((((((.((((...)))).))))))(((.(((((.....))))).)))......... ( -30.40)
>consensus
UAAAGCUGGAGCAAUAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAAAACA
....((((.(((((.......))))).))))......(((.((((..(((((((((.(......).).))))))))...)))).)))..... (-29.70 = -29.90 +   0.20)

alignment

secondary structure

dotplot

Window 0

Location	10,480,026 – 10,480,118
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	97.61
Mean single sequence MFE	-22.20
Consensus MFE	-22.12
Energy contribution	-21.96
Covariance contribution	-0.16
Combinations/Pair	1.05
Mean z-score	-1.10
Structure conservation index	1.00
SVM decision value	0.12
SVM RNA-class probability	0.593092
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10480026 92 - 22224390
UGUUUUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCCCAGCAUCUAGCCCAAUAUUUGGCCACAGCAAACAUUUAUUGCUCCAGCUUUA
.......((((....)))).((((.....(((((..(((..........))).......)))))..(((((.......)))))...)))).. ( -22.30)
>DroSec_CAF1 10871 92 - 1
UGUUCUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCCCAGCAUCUAGCCCAAUAUUUGGCCACAGCAAACAUUUAUUGCUCCAGCUUUA
(((((..((((....)))).)))))....((((...)))).(((.....(((........)))...(((((.......)))))...)))... ( -23.50)
>DroSim_CAF1 11085 92 - 1
UGUUUUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCCCAGCAUCUAGCCCAAUAUUUGGCCACAGCAAACAUUUAUUGCUCCAGCUUUA
.......((((....)))).((((.....(((((..(((..........))).......)))))..(((((.......)))))...)))).. ( -22.30)
>DroEre_CAF1 12156 92 - 1
UGUUUUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCCCAGCAUCUAGCCCAAUAUUUGGCCACAGCAAACAUGUAUUGCUCCAGCUUCA
.......((((....)))).((((.....(((((..(((..........))).......)))))..(((((.......)))))...)))).. ( -22.30)
>DroYak_CAF1 12704 92 - 1
UGUUUUUGCGCCAUAGCGUCGAGCACCAAGGCCAUCGGCCCAGCAUCUAGCCCAAUAUUUGGCCACAGCAAACAUUUAUUGCUCCAGCUUCA
.......((((....)))).((((.....(((((..(((..........))).......)))))..(((((.......)))))...)))).. ( -20.60)
>consensus
UGUUUUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCCCAGCAUCUAGCCCAAUAUUUGGCCACAGCAAACAUUUAUUGCUCCAGCUUUA
.......((((....)))).((((.....(((((..(((..........))).......)))))..(((((.......)))))...)))).. (-22.12 = -21.96 +  -0.16)

alignment

secondary structure

dotplot

Window 1

Location	10,480,040 – 10,480,154
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	97.37
Mean single sequence MFE	-39.96
Consensus MFE	-39.24
Energy contribution	-39.04
Covariance contribution	-0.20
Combinations/Pair	1.06
Mean z-score	-1.35
Structure conservation index	0.98
SVM decision value	1.09
SVM RNA-class probability	0.913486
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10480040 114 + 22224390
UAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAAAACAACAGCGAACGAAAUGGGACAUCCUGUGCUCCGGAAG
.....((((((((((((((....((((.((((...)))).)))))))))...((.....((((....))))....)).)))))))))((.(((((....)))))..))...... ( -41.40)
>DroSec_CAF1 10885 114 + 1
UAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAGAACAACAGUGGACGAAAUGGGACAUCCUGUGCUCCGGAAG
.....(((..(((((((((....((((.((((...)))).)))))))))...((.((..((((....)))).)).)).))))..)))((.(((((....)))))..))...... ( -39.60)
>DroSim_CAF1 11099 114 + 1
UAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAAAACAACAGUGGACGAAAUGGGACAUCCUGUGCUCCGGAAG
.....(((..(((((((((....((((.((((...)))).)))))))))...((.....((((....))))....)).))))..)))((.(((((....)))))..))...... ( -39.60)
>DroEre_CAF1 12170 114 + 1
UACAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAAAACAACAGCGGACGAAAUGGGACAUCCUGUGCUCCGGAAA
.....((((((((((((((....((((.((((...)))).)))))))))...((.....((((....))))....)).)))))))))((.(((((....)))))..))...... ( -41.00)
>DroYak_CAF1 12718 114 + 1
UAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGACGCUAUGGCGCAAAAACAACAGCGGACGAAAUGGGACAUCCUGUGCUCCGGAAG
.....((((((((((((((....((((.((((...)))).)))))))))...(((((.........))))).......)))))))))((.(((((....)))))..))...... ( -38.20)
>consensus
UAAAUGUUUGCUGUGGCCAAAUAUUGGGCUAGAUGCUGGGCCGAUGGCCUUGGUGCUCGGCGCAAUGGCGCAAAAACAACAGCGGACGAAAUGGGACAUCCUGUGCUCCGGAAG
.....((((((((((((((....((((.((((...)))).)))))))))...((.....((((....))))....)).)))))))))((.(((((....)))))..))...... (-39.24 = -39.04 +  -0.20)

alignment

secondary structure

dotplot

Window 2

Location	10,480,078 – 10,480,194
Length	116
Sequences	5
Columns	116
Reading direction	reverse
Mean pairwise identity	97.41
Mean single sequence MFE	-44.78
Consensus MFE	-43.82
Energy contribution	-43.34
Covariance contribution	-0.48
Combinations/Pair	1.08
Mean z-score	-2.30
Structure conservation index	0.98
SVM decision value	3.86
SVM RNA-class probability	0.999666
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10480078 116 - 22224390
UUCAGUUGAUGGCUCCUUGAGUGUAUGUAGCACUUCGGAGCUUCCGGAGCACAGGAUGUCCCAUUUCGUUCGCUGUUGUUUUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCC
....(((((((((..((((.((((.((((((.((((((.....))))))....(((((........)))))))))........((((....)))))).))))))))))))))))). ( -43.10)
>DroSec_CAF1 10923 116 - 1
UUCAGUUGAUGGCUCCUUGAGUGUAUGUAGCACUUCGGAGCUUCCGGAGCACAGGAUGUCCCAUUUCGUCCACUGUUGUUCUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCC
....(((((((((..((((.((((.(((((((((((((.....))))))....(((((........)))))..))))).....((((....)))))).))))))))))))))))). ( -43.80)
>DroSim_CAF1 11137 116 - 1
UUCAGUUGAUGGCUCCUUGAGUGUAUGUAGCACUUCGGAGCUUCCGGAGCACAGGAUGUCCCAUUUCGUCCACUGUUGUUUUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCC
....(((((((((..((((.((((.(((((((((((((.....))))))....(((((........)))))..))))).....((((....)))))).))))))))))))))))). ( -43.80)
>DroEre_CAF1 12208 116 - 1
UUCAGCUGAUGGCUCCUUGAGUGUAUGUAGCACUUCGGAGUUUCCGGAGCACAGGAUGUCCCAUUUCGUCCGCUGUUGUUUUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCC
....(((((((((..((((.((((.((((((.((((((.....))))))....(((((........)))))))))........((((....)))))).))))))))))))))))). ( -48.50)
>DroYak_CAF1 12756 116 - 1
UUCAGUUGAUGGCUCCUUGAGUGUAUGUAGCACUUCGGAGCUUCCGGAGCACAGGAUGUCCCAUUUCGUCCGCUGUUGUUUUUGCGCCAUAGCGUCGAGCACCAAGGCCAUCGGCC
....(((((((((..((((.((((...((((.((((((.....))))))....(((((........)))))))))......((((((....))).)))))))))))))))))))). ( -44.70)
>consensus
UUCAGUUGAUGGCUCCUUGAGUGUAUGUAGCACUUCGGAGCUUCCGGAGCACAGGAUGUCCCAUUUCGUCCGCUGUUGUUUUUGCGCCAUUGCGCCGAGCACCAAGGCCAUCGGCC
....(((((((((..((((.((((.(((((((((((((.....))))))....(((((........)))))..))))).....((((....)))))).))))))))))))))))). (-43.82 = -43.34 +  -0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:52 2006