Locus 2273

Sequence ID	2L_DroMel_CAF1
Location	6,167,623 – 6,167,826
Length	203
Max. P	0.690358

overview

Window 0

Location	6,167,623 – 6,167,717
Length	94
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	76.42
Mean single sequence MFE	-27.30
Consensus MFE	-6.79
Energy contribution	-9.07
Covariance contribution	2.28
Combinations/Pair	1.24
Mean z-score	-1.72
Structure conservation index	0.25
SVM decision value	0.15
SVM RNA-class probability	0.605386
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6167623 94 - 22407834
GGCUUCUGCUGCUUGACAUCCCCAGACAUGACGCACUAAUCCUGAUUUAGGAGUGAAUUAGAUUUCUC-------UGGCUCAGCUUAAGCAGUCAGAGCAA
.(((.(((((((((((.....(((((..(((..(((...(((((...))))))))..)))......))-------)))......)))))))).)))))).. ( -29.00)
>DroSec_CAF1 3962 94 - 1
GGCUUCUGCUGCUCGGCAUCCCCAGACAUGACGCACUACUCCUGAUUUGGGAGUGAAUUAGAUUUCUA-------UGGCACAGCUUAAGGAGUCAAAGAAA
(((((((...(((.......((((((((.((........)).)).)))))).(((...(((....)))-------...))))))...)))))))....... ( -26.20)
>DroSim_CAF1 13362 94 - 1
GGCUUCUGCUGCUUGGCAUCCCCAGACAUGACGCACUAAUCCUGAUUUAGGAGUGAAUUAGAUUUCUC-------UGGCUCAGCUUAAGCAGUCAAAGCAA
.((((..((((((((((....(((((..(((..(((...(((((...))))))))..)))......))-------)))....)).))))))))..)))).. ( -29.90)
>DroEre_CAF1 3349 100 - 1
GGCGCGUGGUGCCUGGCAUC-CUAGACAUGACGCACUAAUCCAGAUUAAAGUGUGAUUUGGACCUCUUGCUCUACUUGCUCGGCUUAAAAAGUCAAAGGAA
((.((((.(((.((((....-)))).))).)))).))..(((((((((.....)))))))))(((...((.......))..((((.....))))..))).. ( -28.40)
>DroYak_CAF1 13593 86 - 1
GGCGC-------UUGCCAUC-UUAGCCAUGUCGCACUAAUCCAGAUUUAAGAGUGAAGCAGAUUUAUU-------UUGCUCGACUUAAGAAGUCAUGGAAA
(((..-------..)))...-...((......)).....(((((((((..((((..((((((.....)-------)))))..))))...))))).)))).. ( -23.00)
>consensus
GGCUUCUGCUGCUUGGCAUCCCCAGACAUGACGCACUAAUCCUGAUUUAGGAGUGAAUUAGAUUUCUC_______UGGCUCAGCUUAAGAAGUCAAAGAAA
((((.((...(((.(((......(((..(((..(((...((((.....)))))))..)))....)))..........))).)))...)).))))....... ( -6.79 =  -9.07 +   2.28)

alignment

secondary structure

dotplot

Window 1

Location	6,167,717 – 6,167,826
Length	109
Sequences	5
Columns	109
Reading direction	forward
Mean pairwise identity	91.67
Mean single sequence MFE	-36.88
Consensus MFE	-28.78
Energy contribution	-30.34
Covariance contribution	1.56
Combinations/Pair	1.10
Mean z-score	-1.63
Structure conservation index	0.78
SVM decision value	0.33
SVM RNA-class probability	0.690358
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6167717 109 + 22407834
ACCAUCCUUGUCGCAUCGGAAUCUUUGCGGCUCACUGCAUCGGUUGCUUGCCGCCCCACCCGCGGCCACUCAUGGUGGCACAUUGUGCUAUCCAAGCAGCCGGGAAUCG
....(((..((((((..........)))))).........((((((((((((((.......))))).......((((((((...)))))))).)))))))))))).... ( -42.30)
>DroSec_CAF1 4056 106 + 1
ACCAUCCUUGUCGCAUCGGAAUCUUUGCGGCUCACUGCAUCGGUUGCGUG---CCCCACCCGCAGCCACUCAUGGUGGCACAUUGUGCUAUCCAAGCAGCCGGGAAUCG
....((((.((((((..........))))))...((((...(((((((.(---.....).))))))).....(((((((((...)))))).))).))))..)))).... ( -38.00)
>DroSim_CAF1 13456 106 + 1
ACCAUCCUUGUCGCAUCGGAAUCUUUGCGGCUCACUGCAUCGGCUGCUUG---CCCCACCCGCGGCCACUCAUGGUGGCACAUUGUGCUAUCCAAGCAGCCGGGAAUCG
....(((..((((((..........)))))).........((((((((((---...(((.....(((((.....))))).....))).....))))))))))))).... ( -40.60)
>DroEre_CAF1 3449 103 + 1
ACCAUCCUUGUCGCAACCGAAUCUUUGCGGCUCACUGCAUCCUCUGCGUG---CCCCAACCGCGGCCACUCAUGGUGGCACAUUGUGCUAUCCAAGCA---GGGAAUCG
.........(((((((........)))))))........(((.(((((((---((.(....).)).)))...(((((((((...)))))).))).)))---)))).... ( -32.90)
>DroYak_CAF1 13679 103 + 1
ACCAUUCUUGUCGCAUCGGAAUCUUUGCGGCUCACUGCAUCGCAUGCGUG---CCCCAGUCGCUGCCACUCAUGGUGGCACAUUGUGCUAUCCAAGCU---GGGAAUCG
.(((..((((..((((..........((((((....(((.((....))))---)...))))))((((((.....))))))....))))....)))).)---))...... ( -30.60)
>consensus
ACCAUCCUUGUCGCAUCGGAAUCUUUGCGGCUCACUGCAUCGGCUGCGUG___CCCCACCCGCGGCCACUCAUGGUGGCACAUUGUGCUAUCCAAGCAGCCGGGAAUCG
....((((.((((((..........))))))...((((...(((((((............))))))).....(((((((((...)))))).))).))))..)))).... (-28.78 = -30.34 +   1.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:45 2006