Locus 4823

Sequence ID	X_DroMel_CAF1
Location	12,524,216 – 12,524,376
Length	160
Max. P	0.660700

overview

Window 1

Location	12,524,216 – 12,524,336
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	81.80
Mean single sequence MFE	-48.96
Consensus MFE	-32.84
Energy contribution	-33.28
Covariance contribution	0.44
Combinations/Pair	1.21
Mean z-score	-1.77
Structure conservation index	0.67
SVM decision value	0.27
SVM RNA-class probability	0.660700
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12524216 120 + 22224390
UUCCCCCACUUACCUAUUAACAUGAUCGGCUGGCGAUGCACGACUGGAGUACUCCGGUCGGCCACGGGGUGCCGAUUCCUUGUCGCCGCCAUAGGCGAAACCACUGGCGCUGCCCACACU
......................((..((((.((((((((.((((((((....))))))))))...(((((....)))))..))))))((((..((.....))..))))))))..)).... ( -41.70)
>DroSec_CAF1 53839 116 + 1
----CCCACUUACCUAUUGGCAUGAUCGGCUGGCGAUGCACGACUGGAGUACUCCGGUCGGCCUCGUGGUGCCGAUUCCUUGUCGCCGCCGUAGGCGAAGCCACUAGCGCUGCCCACACU
----.........(((.((((..((((((((.((((.((.((((((((....)))))))))).)))).).))))))).....(((((......))))).)))).)))............. ( -50.60)
>DroEre_CAF1 53930 116 + 1
----CUCACUCACCUAUUGGCAUGAUCCGCCGGCGAGGCGCGACUGGAGUACUCCGGUCGGCCGCGGGGCGCCGGUUCCUUGUCGCCGCCGUAGGCGAAGCCACUGGCACUGCCCACACU
----............(((((.......)))))((.(((.((((((((....))))))))))).))((((((((((..((..(((((......)))))))..))))))...))))..... ( -52.10)
>DroYak_CAF1 54208 116 + 1
----CACACUCACCUAUUCGCAUGAUCGGCGGGCGAUGCACGACUGGAGUACUCCGGUCGGCCACGUGGCGCCGAUUCCUUGUCGCCGCCAUAGGCAAAGCCACUGGCACUGCCCACACU
----...............((.......))(((((.(((.((((((((....))))))))(((..((((((.((((.....)))).)))))).)))..........))).)))))..... ( -47.80)
>DroAna_CAF1 64347 115 + 1
-----ACCCUUACCUGUUGGCGUGUUCGGCCGGGGAGGCCCGGCUGGAGUACUCUGGCCGGCCCCUGGGACCUGGAUCCUUGUCUCCAUAGCCCCCGAAUCCGCCGGCACUGCCCACACU
-----.........((((((((..(((((...(((.((((.(((..((....))..))))))))))(((...((((........))))...))))))))..))))))))........... ( -52.60)
>consensus
____CACACUUACCUAUUGGCAUGAUCGGCCGGCGAUGCACGACUGGAGUACUCCGGUCGGCCACGGGGCGCCGAUUCCUUGUCGCCGCCGUAGGCGAAGCCACUGGCACUGCCCACACU
...........................(((.(((((.((.((((((((....))))))))))..(((((........))))))))))((((..((.....))..))))...)))...... (-32.84 = -33.28 +   0.44)

alignment

secondary structure

dotplot

Window 2

Location	12,524,256 – 12,524,376
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	86.17
Mean single sequence MFE	-55.68
Consensus MFE	-43.44
Energy contribution	-43.20
Covariance contribution	-0.24
Combinations/Pair	1.26
Mean z-score	-1.48
Structure conservation index	0.78
SVM decision value	-0.04
SVM RNA-class probability	0.513679
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12524256 120 + 22224390
CGACUGGAGUACUCCGGUCGGCCACGGGGUGCCGAUUCCUUGUCGCCGCCAUAGGCGAAACCACUGGCGCUGCCCACACUGUUUCGUGGCGAUGGUGACUCCUUGUCGGAACCACCGCCG
.(((((((....)))))))(((...(((((.(((((.....((((((((((..((.....))..))))..((((.((........))))))..)))))).....))))).))).))))). ( -52.90)
>DroSec_CAF1 53875 120 + 1
CGACUGGAGUACUCCGGUCGGCCUCGUGGUGCCGAUUCCUUGUCGCCGCCGUAGGCGAAGCCACUAGCGCUGCCCACACUGUUUCGUGGCGAGGGCGACUCCUUGUCGGAACCACCACCG
((((((((....)))))))).....(((((.(((((.....(((((((((...)))...(((((.((((.((....)).))))..)))))...)))))).....))))).)))))..... ( -55.20)
>DroEre_CAF1 53966 120 + 1
CGACUGGAGUACUCCGGUCGGCCGCGGGGCGCCGGUUCCUUGUCGCCGCCGUAGGCGAAGCCACUGGCACUGCCCACACUGUUGCGCGGCGAGGGCGACUCCUUGUCGGAGCCACCGCCG
((((((((....))))))))((((((((((((((((..((..(((((......)))))))..))))))...)))).((....))))))))...((((.((((.....))))....)))). ( -60.90)
>DroYak_CAF1 54244 120 + 1
CGACUGGAGUACUCCGGUCGGCCACGUGGCGCCGAUUCCUUGUCGCCGCCAUAGGCAAAGCCACUGGCACUGCCCACACUGUUGCGCGGCGAGGGCGACUCCUUGUCGGAGCCACCGCCG
.(((((((....)))))))(((...(((((.(((((.....((((((((((..(((...)))..)))).((((((.((....)).).))).)))))))).....))))).))))).))). ( -62.00)
>DroAna_CAF1 64382 120 + 1
CGGCUGGAGUACUCUGGCCGGCCCCUGGGACCUGGAUCCUUGUCUCCAUAGCCCCCGAAUCCGCCGGCACUGCCCACACUGUUCCGGGGCGAGGGCGACUCCUUGUCAGAGCCACCGCCU
.(((..((....))..)))(((.....((..((((......(((.((...(((((.((((.....(((...)))......)))).)))))...)).)))......))))..))...))). ( -47.40)
>consensus
CGACUGGAGUACUCCGGUCGGCCACGGGGCGCCGAUUCCUUGUCGCCGCCGUAGGCGAAGCCACUGGCACUGCCCACACUGUUGCGCGGCGAGGGCGACUCCUUGUCGGAGCCACCGCCG
.(((((((....)))))))(((.....(((.(((((.....((((((((((..((.....))..))))..(((((..........).))))..)))))).....))))).)))...))). (-43.44 = -43.20 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:54 2006