Locus 368

Sequence ID	2L_DroMel_CAF1
Location	1,159,312 – 1,159,414
Length	102
Max. P	0.681855

overview

Window 0

Location	1,159,312 – 1,159,414
Length	102
Sequences	6
Columns	105
Reading direction	forward
Mean pairwise identity	82.27
Mean single sequence MFE	-39.10
Consensus MFE	-25.14
Energy contribution	-25.78
Covariance contribution	0.64
Combinations/Pair	1.16
Mean z-score	-2.09
Structure conservation index	0.64
SVM decision value	0.31
SVM RNA-class probability	0.681855
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1159312 102 + 22407834
UGGACAUGGCCGAUCUCUGUCGAUCCACCAA---CGCGGACACGGGCAGCUGCUUAAAGUGGCCACCCGUAGCCAGUCCCAGCAAACUGGAGAACCAGCCCAAAA
.((((.(((..((((......))))..))).---...((..(((((..((..(.....)..))..)))))..)).)))).......((((....))))....... ( -35.20)
>DroSec_CAF1 52798 102 + 1
UGGACAUGGCCGAUCUCUGUCGGUCCACCAG---CGCGGACACGGGCAGCUGCUUAAAGUGGCCACCCGUAGCCGGUCCCAGCAAACUGGAGAACCAGCCCAAAA
(((...((((((((....))))).)))....---.((((..(((((..((..(.....)..))..)))))..))((((((((....)))).).))).)))))... ( -40.80)
>DroSim_CAF1 47862 102 + 1
UGGACAUGGCCGAUCUCUGUCGGUCCACCAG---CGCGGACACGGGCAGCUGCUUAAAGUGGCCACCCGUAGCCGGUCCCAGCAAGCUGGAGAACCAGCCCAAAA
.((((.((((((((....))))).)))....---..(((..(((((..((..(.....)..))..)))))..)))))))......(((((....)))))...... ( -43.00)
>DroEre_CAF1 46680 102 + 1
UGGACAUGGCCGAUCUCUGUCGGUCCACCAG---CGGGGACACGCGCAGCUGCUUAAAGUGGCCACCCGGUCCCAUUCCCAGCAAACUGGAGAACCAGCCCAAAA
(((...((((((((....))))).)))...(---(.(((((.((.(..((..(.....)..))..).))))))).(((((((....)))).)))...)))))... ( -36.70)
>DroYak_CAF1 48051 102 + 1
UGGACAUGGCCGAUCUGUGUCGGUCAACCAG---CGGGGACACGGGCAGCUGCUUAAAGUGGCCACCCGGUCCAAGUCCCAGCAAACUGGAGAGCCUGCCCAAAA
(((...((((((((....))))))))....(---(((((((.((((..((..(.....)..))..))))))))...((((((....)))).))..)))))))... ( -44.40)
>DroAna_CAF1 52389 99 + 1
UGGAGCUGGCUGAGCUGUGUCAGCCAUCCAAUGAUGAGGGAACCGGCAGCCACUUUAAGUGGCCAG------CGAAGCCCAAGAAGCCUGAGAGCGCGCCAAUAA
(((.((.((((..((((.....(((.(((.........)))...))).(((((.....))))))))------)..))))......((......)))).))).... ( -34.50)
>consensus
UGGACAUGGCCGAUCUCUGUCGGUCCACCAG___CGCGGACACGGGCAGCUGCUUAAAGUGGCCACCCGUAGCCAGUCCCAGCAAACUGGAGAACCAGCCCAAAA
(((....(((((((....)))))))..))).............((((.(((((.....))))).............((((((....)))).))....)))).... (-25.14 = -25.78 +   0.64)

alignment

secondary structure

dotplot

Window 1

Location	1,159,312 – 1,159,414
Length	102
Sequences	6
Columns	105
Reading direction	reverse
Mean pairwise identity	82.27
Mean single sequence MFE	-43.32
Consensus MFE	-26.16
Energy contribution	-26.17
Covariance contribution	0.01
Combinations/Pair	1.40
Mean z-score	-1.98
Structure conservation index	0.60
SVM decision value	0.03
SVM RNA-class probability	0.549188
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1159312 102 - 22407834
UUUUGGGCUGGUUCUCCAGUUUGCUGGGACUGGCUACGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCGCG---UUGGUGGAUCGACAGAGAUCGGCCAUGUCCA
...(..(((((....)))))..)...((((.((.((((((..((..(.....)..))..)))))).))...---.((((.((((......)))).)))).)))). ( -44.80)
>DroSec_CAF1 52798 102 - 1
UUUUGGGCUGGUUCUCCAGUUUGCUGGGACCGGCUACGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCGCG---CUGGUGGACCGACAGAGAUCGGCCAUGUCCA
...(((((.(((.(.((((....))))))))(((((((((..((..(.....)..))..)))))((((((.---...))))))...........))))..))))) ( -44.90)
>DroSim_CAF1 47862 102 - 1
UUUUGGGCUGGUUCUCCAGCUUGCUGGGACCGGCUACGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCGCG---CUGGUGGACCGACAGAGAUCGGCCAUGUCCA
....(((((((....)))))))....(((((((.((((((..((..(.....)..))..)))))).)))..---...((((.((((......)))))))))))). ( -45.80)
>DroEre_CAF1 46680 102 - 1
UUUUGGGCUGGUUCUCCAGUUUGCUGGGAAUGGGACCGGGUGGCCACUUUAAGCAGCUGCGCGUGUCCCCG---CUGGUGGACCGACAGAGAUCGGCCAUGUCCA
...(((((..((((.((((....))))))))(((((((.(..((..(.....)..))..).)).)))))..---...((((.((((......))))))))))))) ( -42.50)
>DroYak_CAF1 48051 102 - 1
UUUUGGGCAGGCUCUCCAGUUUGCUGGGACUUGGACCGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCCCG---CUGGUUGACCGACACAGAUCGGCCAUGUCCA
...(((((((((((.((((....))))))...((((((((..((..(.....)..))..)))).))))..)---))((((((.(......).)))))).)))))) ( -43.80)
>DroAna_CAF1 52389 99 - 1
UUAUUGGCGCGCUCUCAGGCUUCUUGGGCUUCG------CUGGCCACUUAAAGUGGCUGCCGGUUCCCUCAUCAUUGGAUGGCUGACACAGCUCAGCCAGCUCCA
..(((((((((..((((((...))))))...))------).((((((.....))))))))))))...........(((((((((((......)))))))..)))) ( -38.10)
>consensus
UUUUGGGCUGGUUCUCCAGUUUGCUGGGACUGGCUACGGGUGGCCACUUUAAGCAGCUGCCCGUGUCCGCG___CUGGUGGACCGACAGAGAUCGGCCAUGUCCA
...((((((((.((.((((....))))))))).......((((((.......((....)).((.((((((.......)))))))).........))))))))))) (-26.16 = -26.17 +   0.01)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:07 2006