Locus 6573

Sequence ID	X_DroMel_CAF1
Location	16,421,040 – 16,421,190
Length	150
Max. P	0.865502

overview

Window 6

Location	16,421,040 – 16,421,150
Length	110
Sequences	4
Columns	110
Reading direction	forward
Mean pairwise identity	98.64
Mean single sequence MFE	-36.85
Consensus MFE	-35.70
Energy contribution	-36.20
Covariance contribution	0.50
Combinations/Pair	1.00
Mean z-score	-2.19
Structure conservation index	0.97
SVM decision value	0.85
SVM RNA-class probability	0.865502
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16421040 110 + 22224390
CGCGCAGCAGGGCAAAUCGCAAAUGUUGCACUCGAUAACACGCUCGUUCGUUUUCCUUUCUUAUAAGAAAUCGAUAGAGGCGUGAUUUGUCUGGGCUUAUCGAGGAGCGA
(((((((((..((.....))...)))))).(((((((((((((((..(((.((((.((......)))))).)))..)).)))))....((....))))))))))..))). ( -38.30)
>DroSec_CAF1 41712 110 + 1
CGCGCAGCAGGGCAAAUCGCAAAUGUUGCACUCGAUAACACGCUCGUUCGUUUUCCUUUCUUAUAAGAAAUCGAUAGAGGCGUGAUUUGUCUGGGCUUAUCGAAGAGCGA
(((((((((..((.....))...))))))..((((((((((((((..(((.((((.((......)))))).)))..)).)))))....((....)))))))))...))). ( -34.80)
>DroSim_CAF1 37980 110 + 1
CGCGCAGCAGGGCAAAUCGCAAAUGUUGCACUCGAUAACACGCUCGUUCGUUUUCCUUUCUUAUAAGAAAUCGAUAGAGGCGUGAUUUGUCUGGGCUUAUCGAGGAGCGA
(((((((((..((.....))...)))))).(((((((((((((((..(((.((((.((......)))))).)))..)).)))))....((....))))))))))..))). ( -38.30)
>DroYak_CAF1 39400 110 + 1
CGCGCAGCAGGGCAAAUCGCAAAUGUUGCACUCGAUAACACGCUCGUUCGUUUUCCUUUCUUAUAAGAAAUCGAUAGAGGCGUGAUUAGUCUGGUCUUAUCGAGGAGCGA
(((((((((..((.....))...)))))).(((((((((((((((..(((.((((.((......)))))).)))..)).)))))....(......)))))))))..))). ( -36.00)
>consensus
CGCGCAGCAGGGCAAAUCGCAAAUGUUGCACUCGAUAACACGCUCGUUCGUUUUCCUUUCUUAUAAGAAAUCGAUAGAGGCGUGAUUUGUCUGGGCUUAUCGAGGAGCGA
(((((((((..((.....))...)))))).(((((((((((((((..(((.((((.((......)))))).)))..)).)))))....((....))))))))))..))). (-35.70 = -36.20 +   0.50)

alignment

secondary structure

dotplot

Window 7

Location	16,421,070 – 16,421,190
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	96.22
Mean single sequence MFE	-30.25
Consensus MFE	-29.19
Energy contribution	-29.25
Covariance contribution	0.06
Combinations/Pair	1.03
Mean z-score	-1.46
Structure conservation index	0.96
SVM decision value	0.11
SVM RNA-class probability	0.587455
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16421070 120 - 22224390
GCGAAACGGUCACACCGCACCGCAUUCAGUCCAAUCGGAAUCGCUCCUCGAUAAGCCCAGACAAAUCACGCCUCUAUCGAUUUCUUAUAAGAAAGGAAAACGAACGAGCGUGUUAUCGAG
((((..(((.....)))..(((.(((......))))))..))))..((((((((............(((((.((..(((.((((((.......)))))).)))..))))))))))))))) ( -31.50)
>DroSec_CAF1 41742 118 - 1
GCGAAACGGUCACACCGCACC--AUUCAGUCCAAUCGGAAUCGCUCUUCGAUAAGCCCAGACAAAUCACGCCUCUAUCGAUUUCUUAUAAGAAAGGAAAACGAACGAGCGUGUUAUCGAG
((((..(((.....)))....--......(((....))).))))...(((((((............(((((.((..(((.((((((.......)))))).)))..)))))))))))))). ( -29.10)
>DroSim_CAF1 38010 118 - 1
GCGAAACGGUCACACCGCACC--AUUCAGUCCAAUCGGAAUCGCUCCUCGAUAAGCCCAGACAAAUCACGCCUCUAUCGAUUUCUUAUAAGAAAGGAAAACGAACGAGCGUGUUAUCGAG
((((..(((.....)))....--......(((....))).))))..((((((((............(((((.((..(((.((((((.......)))))).)))..))))))))))))))) ( -31.00)
>DroYak_CAF1 39430 118 - 1
GCAAAACGGUCACACCGCACU--GUUUAGUCCAAUCGGAAUCGCUCCUCGAUAAGACCAGACUAAUCACGCCUCUAUCGAUUUCUUAUAAGAAAGGAAAACGAACGAGCGUGUUAUCGAG
((.(((((((........)))--))))..(((....)))...))..((((((((............(((((.((..(((.((((((.......)))))).)))..))))))))))))))) ( -29.40)
>consensus
GCGAAACGGUCACACCGCACC__AUUCAGUCCAAUCGGAAUCGCUCCUCGAUAAGCCCAGACAAAUCACGCCUCUAUCGAUUUCUUAUAAGAAAGGAAAACGAACGAGCGUGUUAUCGAG
((((..(((.....)))............(((....))).))))..((((((((............(((((.((..(((.((((((.......)))))).)))..))))))))))))))) (-29.19 = -29.25 +   0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:15 2006