Locus 1426

Sequence ID	3L_DroMel_CAF1
Location	4,134,897 – 4,135,011
Length	114
Max. P	0.543294

overview

Window 6

Location	4,134,897 – 4,135,011
Length	114
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	83.33
Mean single sequence MFE	-44.39
Consensus MFE	-32.93
Energy contribution	-33.13
Covariance contribution	0.20
Combinations/Pair	1.32
Mean z-score	-1.49
Structure conservation index	0.74
SVM decision value	-0.04
SVM RNA-class probability	0.513194
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4134897 114 + 23771897
AGGAGGGAUGUGGCUCCACGGUGGGAUAUUUCAAGAAGAUUGUGGGCGGUGAGGUUAGUCGCAAGGGGGCGUGGCCCUGGAUCGCACUCCUCGGAUAUGAUGAUCCCUCCGGAU
.((((((((...((.(((((((..((....))......)))))))))..(((((..(((((....(((((...)))))....)).)))))))).........)))))))).... ( -40.40)
>DroPse_CAF1 11058 114 + 1
AGGAGGGAUGUGGCUACACUCUGAACACCUUCAAGAAGAUCGUUGGCGGCGAGGUGAGUCGCAAGGGGGCCUGGCCCUGGAUUGCACUCUUGGGCUACGAUGAUCCCUCCUCGU
(((((((((((((((((.(((((((....))))....(.(((....)))))))))((((.((((.(((((...)))))...))))))))...))))))....)))))))))... ( -43.30)
>DroEre_CAF1 13099 114 + 1
AGGAGGGAUGUGGCUCCACGGUGGGGUACUUCAAGAAGAUCGUGGGCGGUGAAGUGAGUCGCAAGGGGGCAUGGCCCUGGAUCGUACUCCUCGGCUAUGAUGAUCCCUCCGGAU
.((((((((...(((((...((((..(((((((......(((....))))))))))..))))...)))))((((((..(((......)))..))))))....)))))))).... ( -49.80)
>DroYak_CAF1 11393 114 + 1
AGGAGGGAUGUGGCUCCAAGGUGGGCAUAUACAAGAAGAUCGUGGGCGGUGAGGUGAGUCGCGUGGGGGCGUGGCCCUGGAUUGCACUCCUGGCUUAUGAUGAUCCCUCCGGAU
.((((((((...((((......))))............(((((((((.....((.((((.((.(.(((((...))))).)...)))))))).))))))))).)))))))).... ( -44.70)
>DroAna_CAF1 10756 114 + 1
AGGAGGGAUGUGGAUCUACUGUCGGAUAUUAUAAGAAGAUCGUUGGUGGCGAGGUGAGCCGUAAGGGAGCCUGGCCCUGGAUCGUCUUAUUGGGCUAUGAUGAUCCCUCCGGAU
.(((((((((((....))).((((......((((((.((((...((.(((.((((...((....))..)))).))))).)))).)))))).......)))).)))))))).... ( -44.82)
>DroPer_CAF1 10209 114 + 1
AGGAGGGAUGUGGCUACACUCUGAACACCUUCAAGAAGAUCGUUGGCGGCGAGGUGAGUCGCAAGGGGGCCUGGCCCUGGAUUGCACUCUUGGGCUACGAUGAUCCCUCCUCGU
(((((((((((((((((.(((((((....))))....(.(((....)))))))))((((.((((.(((((...)))))...))))))))...))))))....)))))))))... ( -43.30)
>consensus
AGGAGGGAUGUGGCUCCACGGUGGGCAACUUCAAGAAGAUCGUGGGCGGCGAGGUGAGUCGCAAGGGGGCCUGGCCCUGGAUCGCACUCCUGGGCUAUGAUGAUCCCUCCGGAU
.((((((((...(((((....((((....))))............(((((.......)))))...))))).((((((.(((......))).)))))).....)))))))).... (-32.93 = -33.13 +   0.20)

alignment

secondary structure

dotplot

Window 7

Location	4,134,897 – 4,135,011
Length	114
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	83.33
Mean single sequence MFE	-35.83
Consensus MFE	-22.70
Energy contribution	-24.23
Covariance contribution	1.53
Combinations/Pair	1.09
Mean z-score	-2.16
Structure conservation index	0.63
SVM decision value	0.02
SVM RNA-class probability	0.543294
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4134897 114 - 23771897
AUCCGGAGGGAUCAUCAUAUCCGAGGAGUGCGAUCCAGGGCCACGCCCCCUUGCGACUAACCUCACCGCCCACAAUCUUCUUGAAAUAUCCCACCGUGGAGCCACAUCCCUCCU
....((((((((..........(((((((((((....((((...))))..)))).)))..))))...((((((......................)))).))...)))))))). ( -36.25)
>DroPse_CAF1 11058 114 - 1
ACGAGGAGGGAUCAUCGUAGCCCAAGAGUGCAAUCCAGGGCCAGGCCCCCUUGCGACUCACCUCGCCGCCAACGAUCUUCUUGAAGGUGUUCAGAGUGUAGCCACAUCCCUCCU
...(((((((((....((.((....((((((((....((((...))))..)))).))))(((((..((((..(((.....)))..))))....))).)).)).))))))))))) ( -39.50)
>DroEre_CAF1 13099 114 - 1
AUCCGGAGGGAUCAUCAUAGCCGAGGAGUACGAUCCAGGGCCAUGCCCCCUUGCGACUCACUUCACCGCCCACGAUCUUCUUGAAGUACCCCACCGUGGAGCCACAUCCCUCCU
....((((((((..........(((((((.((.....((((...)))).....)))))).)))....(((((((....................))))).))...)))))))). ( -36.35)
>DroYak_CAF1 11393 114 - 1
AUCCGGAGGGAUCAUCAUAAGCCAGGAGUGCAAUCCAGGGCCACGCCCCCACGCGACUCACCUCACCGCCCACGAUCUUCUUGUAUAUGCCCACCUUGGAGCCACAUCCCUCCU
....((((((((.........(((((.(((.......((((...((......))((......))...))))((((.....)))).......))))))))......)))))))). ( -31.96)
>DroAna_CAF1 10756 114 - 1
AUCCGGAGGGAUCAUCAUAGCCCAAUAAGACGAUCCAGGGCCAGGCUCCCUUACGGCUCACCUCGCCACCAACGAUCUUCUUAUAAUAUCCGACAGUAGAUCCACAUCCCUCCU
....((((((((............((((((.((((...(((.(((...((....))....))).)))......)))).))))))...........((......)))))))))). ( -31.40)
>DroPer_CAF1 10209 114 - 1
ACGAGGAGGGAUCAUCGUAGCCCAAGAGUGCAAUCCAGGGCCAGGCCCCCUUGCGACUCACCUCGCCGCCAACGAUCUUCUUGAAGGUGUUCAGAGUGUAGCCACAUCCCUCCU
...(((((((((....((.((....((((((((....((((...))))..)))).))))(((((..((((..(((.....)))..))))....))).)).)).))))))))))) ( -39.50)
>consensus
AUCCGGAGGGAUCAUCAUAGCCCAAGAGUGCAAUCCAGGGCCAGGCCCCCUUGCGACUCACCUCACCGCCAACGAUCUUCUUGAAGUAGCCCACAGUGGAGCCACAUCCCUCCU
....((((((((.............((((((((....((((...))))..)))).))))....................................(((....))))))))))). (-22.70 = -24.23 +   1.53)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:07:13 2006