Locus 6457

Sequence ID	3L_DroMel_CAF1
Location	17,232,702 – 17,232,816
Length	114
Max. P	0.999237

overview

Window 4

Location	17,232,702 – 17,232,816
Length	114
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.05
Mean single sequence MFE	-29.18
Consensus MFE	-25.90
Energy contribution	-26.50
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-2.60
Structure conservation index	0.89
SVM decision value	3.45
SVM RNA-class probability	0.999237
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17232702 114 + 23771897
UCACUAACAAAGUACCCAAGUGGAAUGCAACAUUGUUGCUCCGCAGCAUUCAGAUGUGGCGGCAUUUUCU------AUUUCCAUUUUUGUUUUGGCAUUUUUUAGUUGCCUUCAUUUCUC
.....(((((((.....((((((((.(((((...))))).((((.((((....)))).))))....))))------))))....)))))))..((((.........)))).......... ( -26.70)
>DroSec_CAF1 116684 114 + 1
UCACUAACAAAGUGCCCAAGUGGAAUGCAACAUUGUUGCUCCGCAGCAUUCAGAUGUGGCGGCAUUUUCU------AUUUCCAUUUUUGUUUUGGCAUUUUUUAGUUGCCUUCAUUUCUC
..(((((.(((((((((((((((((.(((((...))))).((((.((((....)))).))))........------..))))))..)))....))))))))))))).............. ( -30.70)
>DroSim_CAF1 110500 114 + 1
UCACUAACAAAGUGCCCAAGUGGAAUGCAACAUUGUUGCUCCGCAGCAUUCAGAUGUGGCGGCAUUUUCU------AUUUCCAUUUUUGUUUUGGCAUUUUUUAGUUGCCUUCAUUUCUC
..(((((.(((((((((((((((((.(((((...))))).((((.((((....)))).))))........------..))))))..)))....))))))))))))).............. ( -30.70)
>DroEre_CAF1 120078 114 + 1
UCCCUAACAAAGUGCCCAAGUGGAAUGCAACAUUGUUGCUGCACAGCAUUCAGAUGUGGCGGCAUUUUCU------AUUUCCAUUUUUGUUUUGGCAUUUUUUAGUUGCCUUCAUUUCGC
...((((.(((((((((((((((((........((((((..(((........).))..))))))......------..))))))..)))....))))))))))))............... ( -28.29)
>DroYak_CAF1 122959 120 + 1
UCCCUAACAAAGUGCCCAAGUGGAAUGCAACAUUGUUGCUCCGCAGCAUUCAGAUGUGGCGGCAUUUUCUAUUUCUAUUUCCAUUUUUGUUUUGGCAUUUUUUAGUUGCCUUCAUUUCUC
...((((.(((((((((((((((((.(((((...))))).((((.((((....)))).))))................))))))..)))....))))))))))))............... ( -29.50)
>consensus
UCACUAACAAAGUGCCCAAGUGGAAUGCAACAUUGUUGCUCCGCAGCAUUCAGAUGUGGCGGCAUUUUCU______AUUUCCAUUUUUGUUUUGGCAUUUUUUAGUUGCCUUCAUUUCUC
...((((.(((((((((((((((((.(((((...))))).((((.((((....)))).))))................))))))..)))....))))))))))))............... (-25.90 = -26.50 +   0.60)

alignment

secondary structure

dotplot

Window 5

Location	17,232,702 – 17,232,816
Length	114
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.05
Mean single sequence MFE	-24.34
Consensus MFE	-22.10
Energy contribution	-21.98
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-1.19
Structure conservation index	0.91
SVM decision value	0.14
SVM RNA-class probability	0.601515
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17232702 114 - 23771897
GAGAAAUGAAGGCAACUAAAAAAUGCCAAAACAAAAAUGGAAAU------AGAAAAUGCCGCCACAUCUGAAUGCUGCGGAGCAACAAUGUUGCAUUCCACUUGGGUACUUUGUUAGUGA
....((..((((((.........))))...((..((.(((((..------........((((..(((....)))..)))).(((((...))))).))))).))..))..))..))..... ( -23.60)
>DroSec_CAF1 116684 114 - 1
GAGAAAUGAAGGCAACUAAAAAAUGCCAAAACAAAAAUGGAAAU------AGAAAAUGCCGCCACAUCUGAAUGCUGCGGAGCAACAAUGUUGCAUUCCACUUGGGCACUUUGUUAGUGA
..............(((((.(((((((.......((.(((((..------........((((..(((....)))..)))).(((((...))))).))))).)).)))).))).))))).. ( -25.10)
>DroSim_CAF1 110500 114 - 1
GAGAAAUGAAGGCAACUAAAAAAUGCCAAAACAAAAAUGGAAAU------AGAAAAUGCCGCCACAUCUGAAUGCUGCGGAGCAACAAUGUUGCAUUCCACUUGGGCACUUUGUUAGUGA
..............(((((.(((((((.......((.(((((..------........((((..(((....)))..)))).(((((...))))).))))).)).)))).))).))))).. ( -25.10)
>DroEre_CAF1 120078 114 - 1
GCGAAAUGAAGGCAACUAAAAAAUGCCAAAACAAAAAUGGAAAU------AGAAAAUGCCGCCACAUCUGAAUGCUGUGCAGCAACAAUGUUGCAUUCCACUUGGGCACUUUGUUAGGGA
(((((.....((((...........(((.........)))....------......))))(((.((..((......((((((((....))))))))..))..)))))..)))))...... ( -23.70)
>DroYak_CAF1 122959 120 - 1
GAGAAAUGAAGGCAACUAAAAAAUGCCAAAACAAAAAUGGAAAUAGAAAUAGAAAAUGCCGCCACAUCUGAAUGCUGCGGAGCAACAAUGUUGCAUUCCACUUGGGCACUUUGUUAGGGA
...............((((.(((((((.......((.(((((................((((..(((....)))..)))).(((((...))))).))))).)).)))).))).))))... ( -24.20)
>consensus
GAGAAAUGAAGGCAACUAAAAAAUGCCAAAACAAAAAUGGAAAU______AGAAAAUGCCGCCACAUCUGAAUGCUGCGGAGCAACAAUGUUGCAUUCCACUUGGGCACUUUGUUAGUGA
...............((((.(((((((.......((.(((((................((((..(((....)))..)))).(((((...))))).))))).)).)))).))).))))... (-22.10 = -21.98 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:38 2006