Locus 487

Sequence ID 2L_DroMel_CAF1
Location 1,445,152 – 1,445,250
Length 98
Max. P 0.825577
window779 window780

overview

Window 9

Location 1,445,152 – 1,445,250
Length 98
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 81.12
Mean single sequence MFE -22.55
Consensus MFE -17.00
Energy contribution -16.25
Covariance contribution -0.75
Combinations/Pair 1.14
Mean z-score -1.47
Structure conservation index 0.75
SVM decision value -0.03
SVM RNA-class probability 0.516358
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1445152 98 + 22407834
GUUCAUGUAUCUGAGCUGUGCAUCUCGAAGUUAGAGAUGGUACACAGUCACGAG-----GAAAAGUACAUUACGUAUUACAUAUUUAUUAUAUUUU------GAUAUUA
....((((((((((.(((((((((((.......))))))...)))))))).)).-----.....((((.....)))))))))...(((((.....)------))))... ( -20.00)
>DroSec_CAF1 63175 94 + 1
GUUCAUGUAUCUGAGCUGUGCAUCUCGAAGUUAGAGAUGGUACACAGUCACGAU-----GAAAAGUACAUUACGUAUUACGUA----UUACAUAGU------UAUUAUA
.......(((((((.(((((((((((.......))))))...)))))))).)))-----)....(((...((((.....))))----.))).....------....... ( -22.10)
>DroSim_CAF1 65693 94 + 1
GUUCAUGUAUCUGAGCUGUGCAUCUCGAAGUUAGAGAUGGUACACAGUCACGAU-----GAAAAGUACAUUGCGUAUUACGUA----UUACAUAUU------UAUUAUA
.......(((((((.(((((((((((.......))))))...)))))))).)))-----)....(((...((((.....))))----.))).....------....... ( -22.10)
>DroYak_CAF1 64519 105 + 1
GUUCGUGUAUCUGAGCUGUGCAUCUCGAACUUAGGGAUGGCACACAGUCACGAGCCAAGGAAAAUUGCACUCCAUUUUAAACA----UUAAAUAUUUUGCUUUAUUUUG
(((((((...(((...((((((((((.......))))).)))))))).))))))).....(((((.(((....((((......----..))))....)))...))))). ( -26.00)
>consensus
GUUCAUGUAUCUGAGCUGUGCAUCUCGAAGUUAGAGAUGGUACACAGUCACGAG_____GAAAAGUACAUUACGUAUUACAUA____UUACAUAUU______UAUUAUA
....((((((((((.(((((((((((.......))))))...)))))))).))............)))))....................................... (-17.00 = -16.25 +  -0.75)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 1,445,152 – 1,445,250
Length 98
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 81.12
Mean single sequence MFE -19.98
Consensus MFE -14.40
Energy contribution -13.90
Covariance contribution -0.50
Combinations/Pair 1.19
Mean z-score -1.86
Structure conservation index 0.72
SVM decision value 0.70
SVM RNA-class probability 0.825577
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1445152 98 - 22407834
UAAUAUC------AAAAUAUAAUAAAUAUGUAAUACGUAAUGUACUUUUC-----CUCGUGACUGUGUACCAUCUCUAACUUCGAGAUGCACAGCUCAGAUACAUGAAC
.......------.............((((((.(((.....)))......-----.((.((((((((...((((((.......))))))))))).)))))))))))... ( -18.30)
>DroSec_CAF1 63175 94 - 1
UAUAAUA------ACUAUGUAA----UACGUAAUACGUAAUGUACUUUUC-----AUCGUGACUGUGUACCAUCUCUAACUUCGAGAUGCACAGCUCAGAUACAUGAAC
.......------..((((((.----((((.....))))...........-----.((.((((((((...((((((.......))))))))))).)))))))))))... ( -21.80)
>DroSim_CAF1 65693 94 - 1
UAUAAUA------AAUAUGUAA----UACGUAAUACGCAAUGUACUUUUC-----AUCGUGACUGUGUACCAUCUCUAACUUCGAGAUGCACAGCUCAGAUACAUGAAC
.......------..((((((.----(((((........)))))......-----.((.((((((((...((((((.......))))))))))).)))))))))))... ( -20.70)
>DroYak_CAF1 64519 105 - 1
CAAAAUAAAGCAAAAUAUUUAA----UGUUUAAAAUGGAGUGCAAUUUUCCUUGGCUCGUGACUGUGUGCCAUCCCUAAGUUCGAGAUGCACAGCUCAGAUACACGAAC
.........(((...(((((..----......)))))...))).............(((((.((((((((.(((.(.......).))))))))...)))...))))).. ( -19.10)
>consensus
UAAAAUA______AAUAUGUAA____UACGUAAUACGUAAUGUACUUUUC_____AUCGUGACUGUGUACCAUCUCUAACUUCGAGAUGCACAGCUCAGAUACAUGAAC
..........................(((((........)))))............(((((.(((.((..((((((.......))))))....)).)))...))))).. (-14.40 = -13.90 +  -0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:20 2006