Locus 8245

Sequence ID	X_DroMel_CAF1
Location	20,464,551 – 20,464,641
Length	90
Max. P	0.941963

overview

Window 5

Location	20,464,551 – 20,464,641
Length	90
Sequences	6
Columns	98
Reading direction	forward
Mean pairwise identity	78.12
Mean single sequence MFE	-13.81
Consensus MFE	-12.28
Energy contribution	-12.45
Covariance contribution	0.17
Combinations/Pair	1.22
Mean z-score	-1.81
Structure conservation index	0.89
SVM decision value	1.32
SVM RNA-class probability	0.941963
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20464551 90 + 22224390
------GCUCUUGCC--UUUUUUCGAGAUUAUUAUUAGCGCAACAUUAACGUCAAAUUACGCAUCUAUUUUGCGCACUUUAUCUCGAUCUCCCUAUAU
------((....)).--.....(((((((........((((((.((...(((......))).....)).)))))).....)))))))........... ( -16.92)
>DroSec_CAF1 37918 92 + 1
------CCUCUUGCCGUUUUUUUCGGGAUUAUUAUUAGCGCAACAUUAACGUCAAAUUACUCAUCUAUUUUGCGCACUUUAUCUCGAUCUCCCUAUAU
------................(((((((........((((((.((....................)).)))))).....)))))))........... ( -13.07)
>DroSim_CAF1 43027 92 + 1
------CCUCUUGCCGUUUUUUUCGGGAUUAUUAUUAGCGCAACAUUAACGUCAAAUUACGCAUCUAUUUUGCGCACUUUAUCUCGAUCUCCCUAUAU
------................(((((((........((((((.((...(((......))).....)).)))))).....)))))))........... ( -15.42)
>DroWil_CAF1 56736 90 + 1
GAUCUACUUUAUGUGAU---CUGACAGAUUAUUAUUAGCGUAACAUUAACGUCAAAUUACGCAUCUAUUUUGCGCACUUUAUCUCUCUCUUCC-----
((((.((.....)))))---).((.((((........((((((.((...(((......))).....)).)))))).....)))).))......----- ( -12.72)
>DroYak_CAF1 36762 89 + 1
------CCUCGCCC---AUUUCUCGAGAUUAUUAUUAGCGCAACAUUAACGUCAAAUUACGCAUCUAUUUUGCGCACUUUAUCUCGAUCUCCCUAUAU
------........---.....(((((((........((((((.((...(((......))).....)).)))))).....)))))))........... ( -16.22)
>DroPer_CAF1 59864 83 + 1
UACCCAUCUAAUGCCGG---CUGACAGAUUAUUAUUAGCGUAACAUUAACGUCAAAUUACGCAUCUAUUUUGCGCACUUUAUCC------------AU
........(((((...(---((((..........)))))....)))))...........((((.......))))..........------------.. (  -8.50)
>consensus
______CCUCUUGCCGUUUUUUUCGAGAUUAUUAUUAGCGCAACAUUAACGUCAAAUUACGCAUCUAUUUUGCGCACUUUAUCUCGAUCUCCCUAUAU
......................(((((((........((((((.((...(((......))).....)).)))))).....)))))))........... (-12.28 = -12.45 +   0.17)

alignment

secondary structure

dotplot

Window 6

Location	20,464,551 – 20,464,641
Length	90
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	78.12
Mean single sequence MFE	-17.41
Consensus MFE	-13.23
Energy contribution	-14.20
Covariance contribution	0.97
Combinations/Pair	1.18
Mean z-score	-1.33
Structure conservation index	0.76
SVM decision value	0.71
SVM RNA-class probability	0.830195
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20464551 90 - 22224390
AUAUAGGGAGAUCGAGAUAAAGUGCGCAAAAUAGAUGCGUAAUUUGACGUUAAUGUUGCGCUAAUAAUAAUCUCGAAAAAA--GGCAAGAGC------
...........(((((((.....((((((.......((((......)))).....))))))........))))))).....--.........------ ( -20.32)
>DroSec_CAF1 37918 92 - 1
AUAUAGGGAGAUCGAGAUAAAGUGCGCAAAAUAGAUGAGUAAUUUGACGUUAAUGUUGCGCUAAUAAUAAUCCCGAAAAAAACGGCAAGAGG------
.....((((..............((((((.((.((((..........)))).)).)))))).........))))..................------ ( -14.70)
>DroSim_CAF1 43027 92 - 1
AUAUAGGGAGAUCGAGAUAAAGUGCGCAAAAUAGAUGCGUAAUUUGACGUUAAUGUUGCGCUAAUAAUAAUCCCGAAAAAAACGGCAAGAGG------
.....((((..............((((((.......((((......)))).....)))))).........))))..................------ ( -17.30)
>DroWil_CAF1 56736 90 - 1
-----GGAAGAGAGAGAUAAAGUGCGCAAAAUAGAUGCGUAAUUUGACGUUAAUGUUACGCUAAUAAUAAUCUGUCAG---AUCACAUAAAGUAGAUC
-----......((.((((....((((((.......))))))...(((((....)))))...........)))).)).(---(((((.....)).)))) ( -15.80)
>DroYak_CAF1 36762 89 - 1
AUAUAGGGAGAUCGAGAUAAAGUGCGCAAAAUAGAUGCGUAAUUUGACGUUAAUGUUGCGCUAAUAAUAAUCUCGAGAAAU---GGGCGAGG------
...........(((((((.....((((((.......((((......)))).....))))))........))))))).....---........------ ( -20.32)
>DroPer_CAF1 59864 83 - 1
AU------------GGAUAAAGUGCGCAAAAUAGAUGCGUAAUUUGACGUUAAUGUUACGCUAAUAAUAAUCUGUCAG---CCGGCAUUAGAUGGGUA
..------------...((((.((((((.......)))))).)))).((((((((((..(((.(((......))).))---).)))))).)))).... ( -16.00)
>consensus
AUAUAGGGAGAUCGAGAUAAAGUGCGCAAAAUAGAUGCGUAAUUUGACGUUAAUGUUGCGCUAAUAAUAAUCUCGAAAAAAACGGCAAGAGG______
...........(((((((.....((((((.......((((......)))).....))))))........)))))))...................... (-13.23 = -14.20 +   0.97)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:17 2006