Locus 7734

Sequence ID	2L_DroMel_CAF1
Location	21,854,521 – 21,854,674
Length	153
Max. P	0.998816

overview

Window 3

Location	21,854,521 – 21,854,634
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	91.24
Mean single sequence MFE	-31.54
Consensus MFE	-28.20
Energy contribution	-28.08
Covariance contribution	-0.12
Combinations/Pair	1.15
Mean z-score	-2.29
Structure conservation index	0.89
SVM decision value	3.24
SVM RNA-class probability	0.998816
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21854521 113 + 22407834
AUCGAUUGAGUAACGAACAAUCUGUCGAUCUGUUCGCUGUUCAGCGAAUUUUAAUUUUCGUUUAAAUAUGGAUUUCGGUUCCGAUUCGAAUUCUCUUUCGGAUCUGCGAUCCG
.(((.(((((((.(((((((((....))).)))))).))))))))))......................(((((.(((.(((((...((....))..))))).))).))))). ( -31.50)
>DroSec_CAF1 142316 113 + 1
AUCGAUUGAGUAACGAACAAUCUGUCGAUCUGCUCGCUGUUCAGCGAAUUUUAAUUUUCGCUUAAAUAUGGAUCUCGGUUCAGAUUCGAAUUCGCUUUCGGAUCUGCGAUCCG
...((.((((((.(((........)))...))))))....))((((((........)))))).......(((((......((((((((((......)))))))))).))))). ( -30.60)
>DroSim_CAF1 88615 113 + 1
AUCGAUUGAGUAACGAACAAUCUGUCGAUCUGUUCGCUGUUCAGCGAAUUUUAAUUUUCGCUUAAAUAUGGAUCUCGGUUCCGAUUCGAAUUCGCUUUCGGAUCUGCGAUCCG
......((((((.(((((((((....))).)))))).))))))(((((........)))))........(((((.(((.(((((..((....))...))))).))).))))). ( -37.10)
>DroEre_CAF1 104400 113 + 1
AUCGAUUGAGUAACGAACAAUCUGUCGCUCUGUUCGCUGUUCAGCGAAUUUUAAUUUUCGUCCAAAUAUGGAUUUCGGUUCCGAUUUGGAUUCGCUUUCGGAUUCGCGAUCCG
...(((((((((.((((((...........)))))).))))).(((((((..((.....((((((((.((((.......)))))))))))).....))..))))))))))).. ( -31.30)
>DroYak_CAF1 94269 109 + 1
AUCGAUUGAAUAACGAAAAAUCUGUCGAUCUGUUCGCUGUUCAGCGAAUUU----UUUCGUUUAAAUAUGGAUUUCGGUUCCGAUUUAGACUCACUUUCAGAUUCGCGAUCCG
...(((((.....(((...(((((..((...(((((((....)))))))..----..))((((((((.((((.......)))))))))))).......))))))))))))).. ( -27.20)
>consensus
AUCGAUUGAGUAACGAACAAUCUGUCGAUCUGUUCGCUGUUCAGCGAAUUUUAAUUUUCGUUUAAAUAUGGAUUUCGGUUCCGAUUCGAAUUCGCUUUCGGAUCUGCGAUCCG
......((((((.(((((((((....))).)))))).))))))(((((........)))))........(((((.(((.(((((.............))))).))).))))). (-28.20 = -28.08 +  -0.12)

alignment

secondary structure

dotplot

Window 4

Location	21,854,521 – 21,854,634
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	91.24
Mean single sequence MFE	-30.70
Consensus MFE	-22.32
Energy contribution	-22.52
Covariance contribution	0.20
Combinations/Pair	1.21
Mean z-score	-2.87
Structure conservation index	0.73
SVM decision value	1.12
SVM RNA-class probability	0.917974
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21854521 113 - 22407834
CGGAUCGCAGAUCCGAAAGAGAAUUCGAAUCGGAACCGAAAUCCAUAUUUAAACGAAAAUUAAAAUUCGCUGAACAGCGAACAGAUCGACAGAUUGUUCGUUACUCAAUCGAU
((((((...)))))).........((((.(((....)))............((((((........((((((....))))))..((((....)))).))))))......)))). ( -27.40)
>DroSec_CAF1 142316 113 - 1
CGGAUCGCAGAUCCGAAAGCGAAUUCGAAUCUGAACCGAGAUCCAUAUUUAAGCGAAAAUUAAAAUUCGCUGAACAGCGAGCAGAUCGACAGAUUGUUCGUUACUCAAUCGAU
.(((((.(((((.((((......)))).)))))......))))).......((((((........))))))((..(((((((((.((....)))))))))))..))....... ( -34.10)
>DroSim_CAF1 88615 113 - 1
CGGAUCGCAGAUCCGAAAGCGAAUUCGAAUCGGAACCGAGAUCCAUAUUUAAGCGAAAAUUAAAAUUCGCUGAACAGCGAACAGAUCGACAGAUUGUUCGUUACUCAAUCGAU
.(((((.(.(.(((((...((....))..))))).).).))))).......((((((........))))))((..(((((((((.((....)))))))))))..))....... ( -35.50)
>DroEre_CAF1 104400 113 - 1
CGGAUCGCGAAUCCGAAAGCGAAUCCAAAUCGGAACCGAAAUCCAUAUUUGGACGAAAAUUAAAAUUCGCUGAACAGCGAACAGAGCGACAGAUUGUUCGUUACUCAAUCGAU
.(((((((..........))).))))...(((....)))..((((....))))(((.........((((((....))))))..(((..((.((....))))..)))..))).. ( -30.70)
>DroYak_CAF1 94269 109 - 1
CGGAUCGCGAAUCUGAAAGUGAGUCUAAAUCGGAACCGAAAUCCAUAUUUAAACGAAA----AAAUUCGCUGAACAGCGAACAGAUCGACAGAUUUUUCGUUAUUCAAUCGAU
.((((..((..(((((.((.....))...)))))..))..)))).......(((((((----((.((((((....))))))....((....)))))))))))........... ( -25.80)
>consensus
CGGAUCGCAGAUCCGAAAGCGAAUUCGAAUCGGAACCGAAAUCCAUAUUUAAACGAAAAUUAAAAUUCGCUGAACAGCGAACAGAUCGACAGAUUGUUCGUUACUCAAUCGAU
.((((..(.(.(((((...((....))..))))).).)..)))).......((((((........((((((....))))))..((((....)))).))))))........... (-22.32 = -22.52 +   0.20)

alignment

secondary structure

dotplot

Window 5

Location	21,854,554 – 21,854,674
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.00
Mean single sequence MFE	-31.70
Consensus MFE	-27.32
Energy contribution	-26.48
Covariance contribution	-0.84
Combinations/Pair	1.23
Mean z-score	-2.03
Structure conservation index	0.86
SVM decision value	2.16
SVM RNA-class probability	0.989320
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 21854554 120 + 22407834
UCGCUGUUCAGCGAAUUUUAAUUUUCGUUUAAAUAUGGAUUUCGGUUCCGAUUCGAAUUCUCUUUCGGAUCUGCGAUCCGACUUCGAUUUGUGUUUUUAGGUAGCCAGCAGAUCGUUUAA
(((((....)))))..............((((((...((..((((.(((((((((((......)))))))).).)).))))..))((((((((((.......)))..))))))))))))) ( -31.90)
>DroSec_CAF1 142349 120 + 1
UCGCUGUUCAGCGAAUUUUAAUUUUCGCUUAAAUAUGGAUCUCGGUUCAGAUUCGAAUUCGCUUUCGGAUCUGCGAUCCGACUUCGAUUUGUGUUUUUAGGUAGCCAGCAGAUCGUUUAA
..((((...((((((........)))))).(((((..((((((((..((((((((((......))))))))))....))))....))))..))))).........))))........... ( -37.40)
>DroSim_CAF1 88648 120 + 1
UCGCUGUUCAGCGAAUUUUAAUUUUCGCUUAAAUAUGGAUCUCGGUUCCGAUUCGAAUUCGCUUUCGGAUCUGCGAUCCGACUUCGAUUUGUGUUUUUAGGUAGCCAGCAGAUCGUUUAA
.........((((((........))))))......((((((.(((.(((((..((....))...))))).))).))))))....(((((((((((.......)))..))))))))..... ( -35.20)
>DroEre_CAF1 104433 120 + 1
UCGCUGUUCAGCGAAUUUUAAUUUUCGUCCAAAUAUGGAUUUCGGUUCCGAUUUGGAUUCGCUUUCGGAUUCGCGAUCCGACUUCGAUUUGUGUUUUUAGGUAGUCAGUAGAUCGUUUAA
(((((....)))))............((((((((.((((.......))))))))))))(((...(((((((...)))))))...))).........(((((..(((....)))..))))) ( -29.90)
>DroYak_CAF1 94302 115 + 1
UCGCUGUUCAGCGAAUUU----UUUCGUUUAAAUAUGGAUUUCGGUUCCGAUUUAGACUCACUUUCAGAUUCGCGAUCCGAAUUCGAUUUAUGUU-UUAGGUAGUCAGAAGAUCGUUUAA
(((((....)))))....----........(((((((((((((((.(((((.((.((.......)).)).))).)).))))....))))))))))-)((((..(((....)))..)))). ( -24.10)
>consensus
UCGCUGUUCAGCGAAUUUUAAUUUUCGUUUAAAUAUGGAUUUCGGUUCCGAUUCGAAUUCGCUUUCGGAUCUGCGAUCCGACUUCGAUUUGUGUUUUUAGGUAGCCAGCAGAUCGUUUAA
..((((...((((((........)))))).(((((((((((((((.((.((((((((......))))))))...)).))))....))))))))))).........))))........... (-27.32 = -26.48 +  -0.84)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:47 2006