Locus 2914

Sequence ID	X_DroMel_CAF1
Location	7,800,512 – 7,800,669
Length	157
Max. P	0.907333

overview

Window 5

Location	7,800,512 – 7,800,632
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	77.44
Mean single sequence MFE	-41.98
Consensus MFE	-23.64
Energy contribution	-24.00
Covariance contribution	0.36
Combinations/Pair	1.33
Mean z-score	-1.54
Structure conservation index	0.56
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7800512 120 + 22224390
UAGCAAUCACGUGGAAGUACACCCGGCCCAAAAACCCCACCGGCUUCGAAGCCCAUGGGCAACAUAACCGUGGGCAUAAAGACGAUCUUAUCUAUCGGAGCGUUAUCCGGGAAAAGGGAA
.....................(((..(((.............(((((((.((((((((.........))))))))...(((.....))).....)))))))(.....))))....))).. ( -35.70)
>DroVir_CAF1 4504 120 + 1
UAGUAUUUGUGGGCGAGGACACCCGGCGGAAAGACGCCGCCGGCAUCGAAGUCGCCCGGCAGCAGCUGCGGCGGCAAAUACGUGAUCUUAUUGAGCGGCGAGUGCCGUGGAAACAGAUUA
..((((((((.(((..((....))((((......))))))).))......((((((((((....)))).)))))))))))).((((((......(((((....)))))(....))))))) ( -52.00)
>DroSec_CAF1 3504 120 + 1
UAGCAACGACGUGGAAGGACACCCGGGCCAAACACCCCUCCGGCUUCGAAGCCCAUGGGCAACAUCACCUUGGGCAUAAAGACGAUCUUGUCUAUCGGAGCCUUUUCCGGGAACAGGUUA
((((.....(.((((((((.....(((........))))))((((((((.(((((.((.........)).)))))....(((((....))))).))))))))..))))).).....)))) ( -41.60)
>DroSim_CAF1 4018 120 + 1
UAGCAACGACGUGGAAGGACACCCGGGCCAAACACCCCGCCGGCUUCGAAGCCCAUGGGCAACAUCACCUUGGGCAUAAAGACGAUCUUGUCUAUCGGAGUCUUUUCCGGGAACAGUUUA
.........(.(((((((.....((((........))))..((((((((.(((((.((.........)).)))))....(((((....))))).))))))))))))))).)......... ( -39.00)
>DroEre_CAF1 3475 120 + 1
UAGGAACUCGGUGGCAGAACACCCGGGCCAAAAACGCCUCCGGCUUCAAAGCCCAUGGGCAACAUCACCGUGGGCAUGAAGACGAUCUUGUCCAGCGGCACCUCACCCGGGAACAGGGAA
.(((...(((.(((((((......((((.......)))).((.(((((..((((((((.........)))))))).))))).)).)).)).))).)))..)))..((((....).))).. ( -41.60)
>DroYak_CAF1 4010 120 + 1
UAGGAACGCCGUGGAAGAACACCAGGGCCAAAUACCCCGCCGGCUUCGAAGCCCAUGGGCAACAUGACCGUGGGCAUGAAGACGAACUUGUCCAUCGGUACCUCACCCGGGAACAGGGAA
.(((...((((((((.........(((........)))..((.(((((..((((((((.........)))))))).))))).))......)))).)))).)))..((((....).))).. ( -42.00)
>consensus
UAGCAACGACGUGGAAGGACACCCGGGCCAAAAACCCCGCCGGCUUCGAAGCCCAUGGGCAACAUCACCGUGGGCAUAAAGACGAUCUUGUCUAUCGGAGCCUUACCCGGGAACAGGGAA
.....................((((((........))).(((........((((((((.........)))))))).....((((....))))...)))..........)))......... (-23.64 = -24.00 +   0.36)

alignment

secondary structure

dotplot

Window 6

Location	7,800,552 – 7,800,669
Length	117
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	78.01
Mean single sequence MFE	-45.93
Consensus MFE	-29.56
Energy contribution	-30.95
Covariance contribution	1.39
Combinations/Pair	1.14
Mean z-score	-1.89
Structure conservation index	0.64
SVM decision value	1.05
SVM RNA-class probability	0.907333
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7800552 117 + 22224390
CGGCUUCGAAGCCCAUGGGCAACAUAACCGUGGGCAUAAAGACGAUCUUAUCUAUCGGAGCGUUAUCCGGGAAAAGGGAAGCCGGCAAAUCGAAGCAGGGCGCCUGGAAGCCCUCAA
(((((((...((((((((.........))))))))..........((((.(((..((((......))))))).)))))))))))((........))(((((........)))))... ( -47.00)
>DroSec_CAF1 3544 117 + 1
CGGCUUCGAAGCCCAUGGGCAACAUCACCUUGGGCAUAAAGACGAUCUUGUCUAUCGGAGCCUUUUCCGGGAACAGGUUAGUCGGCAAAUCGAAGCAGGGCGUCUGGAAGCCCUCAA
..(((((((.(((((.((.........)).))))).....(((...(((((...((((((....))))))..)))))...)))......)))))))(((((........)))))... ( -47.60)
>DroSim_CAF1 4058 117 + 1
CGGCUUCGAAGCCCAUGGGCAACAUCACCUUGGGCAUAAAGACGAUCUUGUCUAUCGGAGUCUUUUCCGGGAACAGUUUAGUCGGCAAAUCGAAGCAGGGCGUCUGGAAGCCCUCGA
(((((((((.(((((.((.........)).))))).....(((....((((...((((((....))))))..))))....)))......)))))))(((((........))))))). ( -45.00)
>DroEre_CAF1 3515 117 + 1
CGGCUUCAAAGCCCAUGGGCAACAUCACCGUGGGCAUGAAGACGAUCUUGUCCAGCGGCACCUCACCCGGGAACAGGGAAGCCGGCACCUCGAAGCAGGGCGUCUGGAAGCCCUCGA
.((((((...((((((((.........))))))))....(((((.((((((...(.((..((...((((....).))).....))..)).)...))))))))))).))))))..... ( -47.70)
>DroYak_CAF1 4050 117 + 1
CGGCUUCGAAGCCCAUGGGCAACAUGACCGUGGGCAUGAAGACGAACUUGUCCAUCGGUACCUCACCCGGGAACAGGGAAGCGGGCAUCUCGAAGCAGGGCGUCUGGAAGCCCUCGA
(((((((((.((((((((.........))))))))(((....((..(((((((...(((.....)))..)).)))))....))..))).)))))))(((((........))))))). ( -47.90)
>DroAna_CAF1 3708 117 + 1
CAGCAUCGAAUCCGGACGGCAGGAGCUGGCGCGGCAAAUAGGUGAUCUUGCCCAGGGGGGCGUGCAUGGGGAACAUGGUGCGCGGCAAGUCGAAGCAGAUGCACUUCUCGUCCUGGA
..........(((((((((.(((.((..((.((((..............((((....))))((((((.(....)...)))))).....))))..))....)).))).)))))).))) ( -40.40)
>consensus
CGGCUUCGAAGCCCAUGGGCAACAUCACCGUGGGCAUAAAGACGAUCUUGUCCAUCGGAGCCUUAUCCGGGAACAGGGAAGCCGGCAAAUCGAAGCAGGGCGUCUGGAAGCCCUCGA
..(((((((.(((((.((.........)).)))))...........(((((((..(((........))))).)))))............)))))))(((((........)))))... (-29.56 = -30.95 +   1.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:46:33 2006