Locus 2256

Sequence ID	X_DroMel_CAF1
Location	6,106,447 – 6,106,555
Length	108
Max. P	0.936507

overview

Window 0

Location	6,106,447 – 6,106,555
Length	108
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	82.45
Mean single sequence MFE	-31.02
Consensus MFE	-20.12
Energy contribution	-21.18
Covariance contribution	1.06
Combinations/Pair	1.11
Mean z-score	-1.77
Structure conservation index	0.65
SVM decision value	0.14
SVM RNA-class probability	0.601917
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6106447 108 + 22224390
UUUGGAGCUAUUUCACCUACUGGCUACUGUCACCACCUCACACUGAACCGCUCCGAAAUGGAAUCGCCCAGUGCCCGAACUCUCGGGAAUUCCCUGGGCGAUGACAGC
((((((((............((((....)))).....((.....))...)))))))).((..(((((((((..(((((....)))))......)))))))))..)).. ( -40.40)
>DroSec_CAF1 2922 108 + 1
UUUGAAGCUAUUUCACCCACUGGCUACUGUCACCACCCCACAUUGAUCCGUUCCGAAAUGGAAUCGCCCAGCGCUCGAACACUCGGCAAUUCCCCGGGCGAUGACAGC
.....(((((..........))))).((((((.(.(((......((((((((....))))).)))(((.((.(......).)).)))........))).).)))))). ( -28.30)
>DroSim_CAF1 2489 108 + 1
UUUGAAGCUAUUUCACCCACUGGCUACUGUCACCACCCCACAUUGAAUUGUUCCGAAAUGGAAUCGCCCAGCGCUCGAACACUCGGCAAUUCCCCGGGCGAUGACAGC
.....(((((..........))))).((((((.(.(((.(((......)))........(((((.(((.((.(......).)).))).)))))..))).).)))))). ( -28.20)
>DroEre_CAF1 3910 93 + 1
UUUGGAGCUAUUUCACCCACUGGAUACUGUCACC---CCACACUGCUCCGCUCCGAAAUGGAAUCUCCCAGU------------GGGAAUACUCUGGGGGAUGACUGU
((((((((.............(((((.(((....---..))).)).)))))))))))..(..(((((((((.------------(......).)))))))))..)... ( -28.81)
>DroYak_CAF1 2994 105 + 1
UUUGGAGCUAAUUCACCCACUGGAUACUGUCACC---ACACUCUGCUCCGCUCCGAAAUGGAAUCUCCCAGUGCUCGAACACUCGGGAAUUCUCUGGCGGAUGACUGC
...(((((..(((((.....)))))..(((....---)))....)))))..((((..(.(((((.((((((((......)))).))))))))).)..))))....... ( -29.40)
>consensus
UUUGGAGCUAUUUCACCCACUGGCUACUGUCACCACCCCACACUGAUCCGCUCCGAAAUGGAAUCGCCCAGUGCUCGAACACUCGGGAAUUCCCUGGGCGAUGACAGC
((((((((............((((....))))......(.....)....))))))))..(..(((((((((...((((....)))).......)))))))))..)... (-20.12 = -21.18 +   1.06)

alignment

secondary structure

dotplot

Window 1

Location	6,106,447 – 6,106,555
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	82.45
Mean single sequence MFE	-40.98
Consensus MFE	-25.28
Energy contribution	-28.34
Covariance contribution	3.06
Combinations/Pair	1.15
Mean z-score	-2.57
Structure conservation index	0.62
SVM decision value	1.25
SVM RNA-class probability	0.936507
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6106447 108 - 22224390
GCUGUCAUCGCCCAGGGAAUUCCCGAGAGUUCGGGCACUGGGCGAUUCCAUUUCGGAGCGGUUCAGUGUGAGGUGGUGACAGUAGCCAGUAGGUGAAAUAGCUCCAAA
(((((((((((((.(((....)))..........(((((((((..((((.....))))..)))))))))).)))))))))))).(((....))).............. ( -44.30)
>DroSec_CAF1 2922 108 - 1
GCUGUCAUCGCCCGGGGAAUUGCCGAGUGUUCGAGCGCUGGGCGAUUCCAUUUCGGAACGGAUCAAUGUGGGGUGGUGACAGUAGCCAGUGGGUGAAAUAGCUUCAAA
(((((((((((((..(((((((((.(((((....))))).)))))))))..((((...))))........))))))))))))).(((....))).............. ( -49.30)
>DroSim_CAF1 2489 108 - 1
GCUGUCAUCGCCCGGGGAAUUGCCGAGUGUUCGAGCGCUGGGCGAUUCCAUUUCGGAACAAUUCAAUGUGGGGUGGUGACAGUAGCCAGUGGGUGAAAUAGCUUCAAA
(((((((((((((..(((((((((.(((((....))))).)))))))))........(((......))).))))))))))))).(((....))).............. ( -49.20)
>DroEre_CAF1 3910 93 - 1
ACAGUCAUCCCCCAGAGUAUUCCC------------ACUGGGAGAUUCCAUUUCGGAGCGGAGCAGUGUGG---GGUGACAGUAUCCAGUGGGUGAAAUAGCUCCAAA
...((((((((.((..((..((((------------.(((..(.......)..))).).)))))..)).))---)))))).........(((((......)).))).. ( -27.40)
>DroYak_CAF1 2994 105 - 1
GCAGUCAUCCGCCAGAGAAUUCCCGAGUGUUCGAGCACUGGGAGAUUCCAUUUCGGAGCGGAGCAGAGUGU---GGUGACAGUAUCCAGUGGGUGAAUUAGCUCCAAA
.......((((.....((((..((.(((((....))))).))..)))).....))))..(((((......(---(....)).(((((...))))).....)))))... ( -34.70)
>consensus
GCUGUCAUCGCCCAGGGAAUUCCCGAGUGUUCGAGCACUGGGCGAUUCCAUUUCGGAGCGGAUCAGUGUGGGGUGGUGACAGUAGCCAGUGGGUGAAAUAGCUCCAAA
(((((((((((((..((((((.((.(((((....))))).)).))))))........(((......))).)))))))))))))......(((((......)).))).. (-25.28 = -28.34 +   3.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:51 2006