Locus 4316

Sequence ID	3L_DroMel_CAF1
Location	12,688,491 – 12,688,609
Length	118
Max. P	0.864702

overview

Window 6

Location	12,688,491 – 12,688,587
Length	96
Sequences	6
Columns	96
Reading direction	forward
Mean pairwise identity	87.03
Mean single sequence MFE	-27.16
Consensus MFE	-23.18
Energy contribution	-23.23
Covariance contribution	0.06
Combinations/Pair	1.08
Mean z-score	-2.11
Structure conservation index	0.85
SVM decision value	0.84
SVM RNA-class probability	0.864702
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12688491 96 + 23771897
AUUUGAGCUGUUGUCAGCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCCUCAUCCACUUCCACAUCCA
....((((((((((((((((....))))....)))...)))))))))(((.((.((((((((...............)))))))).)).))).... ( -26.86)
>DroPse_CAF1 44994 96 + 1
AACUGAAUUGUUGUCAGCGUGAUCGCGCCACAUGAACAUGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCACAAAAGGCAUCGUCUACGA
.(((((.(((..(((((((....))).((((((.((((.((....)))))).)))))).))))..))))))))........((((...)))).... ( -27.40)
>DroSec_CAF1 52182 90 + 1
AUUUGAGCUGUUGUCAGCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCCUCAUCC------ACAACCA
..((((((((....))))..(((((..((((((.((((.((....)))))).)))))).)))))....))))...........------....... ( -25.50)
>DroSim_CAF1 50991 90 + 1
AUUUGAGCUCUUGUCAGCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCCUCAUCC------ACAUCCA
....(((((.((((((((((....))))....)))...))).)))))....(((((((((((...............))))))------))))).. ( -25.76)
>DroYak_CAF1 54451 96 + 1
AUUUGAGCUGUUGUCAGCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCCUCAUCCACAUCCACUUCCA
....((((((((((((((((....))))....)))...))))))))).((.(((((((((((...............))))))))))).))..... ( -30.06)
>DroPer_CAF1 48636 96 + 1
AACUGAAUUGUUGUCAGCGUGAUCGCGCCACAUGAACAUGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCACAAAAGGCAUCGUCUACGA
.(((((.(((..(((((((....))).((((((.((((.((....)))))).)))))).))))..))))))))........((((...)))).... ( -27.40)
>consensus
AUUUGAGCUGUUGUCAGCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCCUCAUCC_CAUC_ACAACCA
..((((((((....))))..(((((..((((((.((((.((....)))))).)))))).)))))....))))........................ (-23.18 = -23.23 +   0.06)

alignment

secondary structure

dotplot

Window 7

Location	12,688,507 – 12,688,609
Length	102
Sequences	6
Columns	119
Reading direction	forward
Mean pairwise identity	77.63
Mean single sequence MFE	-31.66
Consensus MFE	-19.73
Energy contribution	-19.78
Covariance contribution	0.06
Combinations/Pair	1.09
Mean z-score	-1.33
Structure conservation index	0.62
SVM decision value	0.03
SVM RNA-class probability	0.549994
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 12688507 102 + 23771897
GCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCCUCAUCCACUUCCACAUCCA----------------CAUCCACUGGGCU-CGCUAAGUG
((((....))))...........((((....(((.((.((((((((...............)))))))).)).)))....----------------))))((((.((..-..)).)))) ( -26.86)
>DroPse_CAF1 45010 117 + 1
GCGUGAUCGCGCCACAUGAACAUGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCACAAAAGGCAUCGUCUACGAAGGACGUAGAGCGAGCCAGCCA-GGGCCU-CGUUAAGUG
..(((((.((.((((((.((((.((....)))))).)))))).((((....)))))))))))....(((.(((((((((.....)))))).)))))).((..-..))..-......... ( -39.20)
>DroSec_CAF1 52198 96 + 1
GCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCCUCAUCC------ACAACCA----------------CAUCCACUGGGCU-CGCUAAGUG
(((....)))(((.((.((((......))))(((.(.(((((((((...............))))))------))).).)----------------)).....))))).-......... ( -24.86)
>DroYak_CAF1 54467 102 + 1
GCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCCUCAUCCACAUCCACUUCCA----------------CAUCCACUGGCCU-CGCUAAGUG
((((....))))...........((((.....((.(((((((((((...............))))))))))).)).....----------------))))(((((((..-.))).)))) ( -30.06)
>DroAna_CAF1 53433 97 + 1
GCGUGAUCGCGCCACAUGAACACGAUGAUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCACAGAAG------GCCUCUC----------------UAUCCUCCGGCCAGGGCUAAGUG
(((((((.((.((((((.((((.((....)))))).)))))).((((....)))))))))))....(------(((....----------------........))))...))...... ( -29.80)
>DroPer_CAF1 48652 117 + 1
GCGUGAUCGCGCCACAUGAACAUGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCACAAAAGGCAUCGUCUACGAAGGACGUAGAGCGAGCCAGCCA-GGGCCU-CGUUAAGUG
..(((((.((.((((((.((((.((....)))))).)))))).((((....)))))))))))....(((.(((((((((.....)))))).)))))).((..-..))..-......... ( -39.20)
>consensus
GCGUGAUCGCGCCACAUGAACACGAUGGUUCUGUUGAUGUGGAUGAUCUUAAUCAGUAUCACAAAAC_CAUC_ACUACCA________________CAUCCACUGGCCU_CGCUAAGUG
(((.(((((..((((((.((((.((....)))))).)))))).)))))..................................................(((...)))...)))...... (-19.73 = -19.78 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:19:22 2006