Locus 7816

Sequence ID	3L_DroMel_CAF1
Location	20,901,834 – 20,901,988
Length	154
Max. P	0.579798

overview

Window 9

Location	20,901,834 – 20,901,948
Length	114
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	85.90
Mean single sequence MFE	-23.05
Consensus MFE	-16.37
Energy contribution	-17.75
Covariance contribution	1.37
Combinations/Pair	1.04
Mean z-score	-1.48
Structure conservation index	0.71
SVM decision value	0.04
SVM RNA-class probability	0.553638
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20901834 114 + 23771897
------CUGAUGUACUAAUGGUAAUCAUUAUUUCUGUUUCAUUUAUUUUGGUUUUAGCGUCUAAAGCAGUCUUUUUGCCAUUUACAUUUGCAAAAGACGACCUAUCCCUAAAACUAAAAG
------.((((.(((.....)))))))..................((((((((((((.(..((.....(((((((.((...........)))))))))....))..))))))))))))). ( -20.30)
>DroSec_CAF1 158311 114 + 1
------CUGAUGAACUAAUGGUAAUCAUUAUAUCUGUUUCAUUUAUUUUGGUUUUAGGUUCUAAAGGAGUCUUUUUGGCAUUUACAUUUGCAAAAGACGUCCGAUCCCUAAAACUAAAAG
------..((((((.....((((.......))))...))))))..(((((((((((((.......(((((((((...(((........))).)))))).)))....))))))))))))). ( -29.10)
>DroSim_CAF1 154805 114 + 1
------CUGAUGAACUAAUGGGAAUCAUUAUAUCUGUUUCAUUUAUUUUGGUUUUAGGUUCUAAAAGAGUCUUUUUGGCAUUUACAUUGGCAAAAGACGUCCGAUCCCUAAAACUAAAAG
------..((((...(((((.....)))))))))...........(((((((((((((.((.....))(((((((.(.((.......)).))))))))........))))))))))))). ( -24.80)
>DroEre_CAF1 158138 120 + 1
UCAAAUCUGAUUCACUUAUGGUAAUCAUUAUAUCUGAGGUAUUUAUUUUGGUUUUAGCUUCUAAGCCACCCCUUUUACCAUUUACAUGUGCAAAGGACGACCUAUCCCUAAAACUAAAAG
..........((((..((((((....))))))..)))).......((((((((((((((....)))....(((((...(((......))).)))))............))))))))))). ( -18.00)
>consensus
______CUGAUGAACUAAUGGUAAUCAUUAUAUCUGUUUCAUUUAUUUUGGUUUUAGCUUCUAAAGCAGUCUUUUUGCCAUUUACAUUUGCAAAAGACGACCGAUCCCUAAAACUAAAAG
.......((((...(....)...))))..................(((((((((((((..........(((((((..(((........))))))))))........))))))))))))). (-16.37 = -17.75 +   1.37)

alignment

secondary structure

dotplot

Window 0

Location	20,901,834 – 20,901,948
Length	114
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	85.90
Mean single sequence MFE	-23.85
Consensus MFE	-14.90
Energy contribution	-16.77
Covariance contribution	1.88
Combinations/Pair	1.11
Mean z-score	-1.79
Structure conservation index	0.62
SVM decision value	-0.03
SVM RNA-class probability	0.519404
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20901834 114 - 23771897
CUUUUAGUUUUAGGGAUAGGUCGUCUUUUGCAAAUGUAAAUGGCAAAAAGACUGCUUUAGACGCUAAAACCAAAAUAAAUGAAACAGAAAUAAUGAUUACCAUUAGUACAUCAG------
.((((.(((((((.(..((((.(((((((((...........)).))))))).))))....).))))))).))))..................(((((((.....))).)))).------ ( -21.00)
>DroSec_CAF1 158311 114 - 1
CUUUUAGUUUUAGGGAUCGGACGUCUUUUGCAAAUGUAAAUGCCAAAAAGACUCCUUUAGAACCUAAAACCAAAAUAAAUGAAACAGAUAUAAUGAUUACCAUUAGUUCAUCAG------
.((((.((((((((.(..(((.((((((((((........)))..))))))))))..)....)))))))).))))...........((..(((((.....)))))..)).....------ ( -24.30)
>DroSim_CAF1 154805 114 - 1
CUUUUAGUUUUAGGGAUCGGACGUCUUUUGCCAAUGUAAAUGCCAAAAAGACUCUUUUAGAACCUAAAACCAAAAUAAAUGAAACAGAUAUAAUGAUUCCCAUUAGUUCAUCAG------
.((((.((((((((.(..(((.(((((((....((....))....))))))))))..)....)))))))).))))...........((..(((((.....)))))..)).....------ ( -20.90)
>DroEre_CAF1 158138 120 - 1
CUUUUAGUUUUAGGGAUAGGUCGUCCUUUGCACAUGUAAAUGGUAAAAGGGGUGGCUUAGAAGCUAAAACCAAAAUAAAUACCUCAGAUAUAAUGAUUACCAUAAGUGAAUCAGAUUUGA
.((((.(((((((...((((((..(((((...(((....)))....)))))..))))))....))))))).))))........((((((....(((((((.....))).)))).)))))) ( -29.20)
>consensus
CUUUUAGUUUUAGGGAUAGGACGUCUUUUGCAAAUGUAAAUGCCAAAAAGACUCCUUUAGAACCUAAAACCAAAAUAAAUGAAACAGAUAUAAUGAUUACCAUUAGUUCAUCAG______
.((((.((((((((..(((((((((((((....((....))....))))))).))))))...)))))))).))))...........(((.(((((.....)))))....)))........ (-14.90 = -16.77 +   1.88)

alignment

secondary structure

dotplot

Window 1

Location	20,901,868 – 20,901,988
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	89.86
Mean single sequence MFE	-20.93
Consensus MFE	-15.07
Energy contribution	-16.07
Covariance contribution	1.00
Combinations/Pair	1.12
Mean z-score	-1.72
Structure conservation index	0.72
SVM decision value	0.09
SVM RNA-class probability	0.579798
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20901868 120 + 23771897
AUUUAUUUUGGUUUUAGCGUCUAAAGCAGUCUUUUUGCCAUUUACAUUUGCAAAAGACGACCUAUCCCUAAAACUAAAAGCACUUGAUCUUCCAUCCGCGUUUUUGUUUUCCCACUUCUC
.....((((((((((((.(..((.....(((((((.((...........)))))))))....))..)))))))))))))((...((......))...))..................... ( -19.20)
>DroSec_CAF1 158345 120 + 1
AUUUAUUUUGGUUUUAGGUUCUAAAGGAGUCUUUUUGGCAUUUACAUUUGCAAAAGACGUCCGAUCCCUAAAACUAAAAGCACUUGAUCUUAUAUCCGCAUUUUUGUUUUCCCACUUCUC
.....(((((((((((((.......(((((((((...(((........))).)))))).)))....)))))))))))))......................................... ( -26.20)
>DroSim_CAF1 154839 120 + 1
AUUUAUUUUGGUUUUAGGUUCUAAAAGAGUCUUUUUGGCAUUUACAUUGGCAAAAGACGUCCGAUCCCUAAAACUAAAAGCACUUGAUCUUCCAUCCGCAUUUUUGUUUUCCCACUUCUC
.....(((((((((((((.((.....))(((((((.(.((.......)).))))))))........)))))))))))))((...((......))...))..................... ( -23.80)
>DroEre_CAF1 158178 120 + 1
AUUUAUUUUGGUUUUAGCUUCUAAGCCACCCCUUUUACCAUUUACAUGUGCAAAGGACGACCUAUCCCUAAAACUAAAAGCACUUGAUCUGCCAUCCACAUUUUUGUUCUCCGACUUCUC
.....((((((((((((((....)))....(((((...(((......))).)))))............)))))))))))(((.......)))............................ ( -14.50)
>consensus
AUUUAUUUUGGUUUUAGCUUCUAAAGCAGUCUUUUUGCCAUUUACAUUUGCAAAAGACGACCGAUCCCUAAAACUAAAAGCACUUGAUCUUCCAUCCGCAUUUUUGUUUUCCCACUUCUC
.....(((((((((((((..........(((((((..(((........))))))))))........)))))))))))))..................(((....)))............. (-15.07 = -16.07 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:57:41 2006