Locus 221

Sequence ID	2L_DroMel_CAF1
Location	631,158 – 631,248
Length	90
Max. P	0.695766

overview

Window 4

Location	631,158 – 631,248
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	91.07
Mean single sequence MFE	-22.07
Consensus MFE	-17.60
Energy contribution	-17.60
Covariance contribution	-0.00
Combinations/Pair	1.09
Mean z-score	-1.53
Structure conservation index	0.80
SVM decision value	0.32
SVM RNA-class probability	0.685960
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 631158 90 + 22407834
UUUUGCCCCUUACUGCAGUAUUUGCUUCCAGCUAAGAUACCUAUGCAGAUUUUUCGCCAGCUAUUAGAACAAUCUACCAUGUGUGUGGGC
....(((((((((((.(((....)))..))).))))((((.((((.(((((.(((...........))).)))))..)))).)))))))) ( -20.30)
>DroSec_CAF1 20087 90 + 1
UUUUGCCCCUUACAGCAGGAUUUGCUUCCAGCUCAGAUACCUAUGCAGAUUUUGCGCCAGCUAUUAGAACAAUUUGCCAUGUGUGUGGGC
....(((((.(((((((((((((((...................)))))))))))....((..............))..)))).).)))) ( -22.35)
>DroSim_CAF1 19836 90 + 1
UUUUGCCCCUUACAGCAGGAUUUGCUUCCAGCUCAGAUACCUAUGCAGAUUUUUCGCCAGCUAUUAGAACAAUCUGCCAUGUGUGUGGGC
....((((.....(((.(((......))).)))...((((.((((((((((.(((...........))).)))))).)))).)))))))) ( -25.60)
>DroEre_CAF1 24117 86 + 1
UUUAGCCCCUUGCAAUA----UUGUUUCCAGCUCAGAUACCUAUGCAGAUUUUUCGCCAGCCAUUAGAACAAUCUGCCAUGUGUGUGGGC
....((.....))....----.........(((((.((((....(((((((.(((...........))).)))))))...)))).))))) ( -21.30)
>DroYak_CAF1 23242 86 + 1
UUUAGCCCCUUACAAUA----UUGUUUCCAGCUCAGAUACCUAUGCAGAUUUUUCGCCAGCCAUUAGAACAAUCUGCCAUGUGUGUGGGC
.................----.........(((((.((((....(((((((.(((...........))).)))))))...)))).))))) ( -20.80)
>consensus
UUUUGCCCCUUACAGCAG_AUUUGCUUCCAGCUCAGAUACCUAUGCAGAUUUUUCGCCAGCUAUUAGAACAAUCUGCCAUGUGUGUGGGC
....((((...............((.....))....((((.((((((((((.(((...........))).)))))).)))).)))))))) (-17.60 = -17.60 +  -0.00)

alignment

secondary structure

dotplot

Window 5

Location	631,158 – 631,248
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	91.07
Mean single sequence MFE	-23.64
Consensus MFE	-18.74
Energy contribution	-18.74
Covariance contribution	0.00
Combinations/Pair	1.11
Mean z-score	-1.57
Structure conservation index	0.79
SVM decision value	0.34
SVM RNA-class probability	0.695766
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 631158 90 - 22407834
GCCCACACACAUGGUAGAUUGUUCUAAUAGCUGGCGAAAAAUCUGCAUAGGUAUCUUAGCUGGAAGCAAAUACUGCAGUAAGGGGCAAAA
((((....((...(((((((.(((...........))).)))))))....))..((((.(((..((......)).))))))))))).... ( -21.90)
>DroSec_CAF1 20087 90 - 1
GCCCACACACAUGGCAAAUUGUUCUAAUAGCUGGCGCAAAAUCUGCAUAGGUAUCUGAGCUGGAAGCAAAUCCUGCUGUAAGGGGCAAAA
((((......((((((....((((..(((.(((..(((.....))).))).)))..)))).(((......)))))))))...)))).... ( -26.00)
>DroSim_CAF1 19836 90 - 1
GCCCACACACAUGGCAGAUUGUUCUAAUAGCUGGCGAAAAAUCUGCAUAGGUAUCUGAGCUGGAAGCAAAUCCUGCUGUAAGGGGCAAAA
((((..((((...(((((((.(((...........))).)))))))....)).....(((.(((......))).)))))...)))).... ( -26.00)
>DroEre_CAF1 24117 86 - 1
GCCCACACACAUGGCAGAUUGUUCUAAUGGCUGGCGAAAAAUCUGCAUAGGUAUCUGAGCUGGAAACAA----UAUUGCAAGGGGCUAAA
((((.((....))((((...((((..(((.((((((.......))).))).)))..))))((....)).----..))))...)))).... ( -22.70)
>DroYak_CAF1 23242 86 - 1
GCCCACACACAUGGCAGAUUGUUCUAAUGGCUGGCGAAAAAUCUGCAUAGGUAUCUGAGCUGGAAACAA----UAUUGUAAGGGGCUAAA
((((..(((....(((((((.(((...........))).)))))))..............((....)).----...)))...)))).... ( -21.60)
>consensus
GCCCACACACAUGGCAGAUUGUUCUAAUAGCUGGCGAAAAAUCUGCAUAGGUAUCUGAGCUGGAAGCAAAU_CUGCUGUAAGGGGCAAAA
((((.........(((((((.(((...........))).)))))))....((.(((.....))).))...............)))).... (-18.74 = -18.74 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:26 2006