Locus 4935

Sequence ID	X_DroMel_CAF1
Location	12,862,332 – 12,862,428
Length	96
Max. P	0.990636

overview

Window 8

Location	12,862,332 – 12,862,428
Length	96
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	94.81
Mean single sequence MFE	-22.22
Consensus MFE	-19.90
Energy contribution	-19.62
Covariance contribution	-0.28
Combinations/Pair	1.11
Mean z-score	-1.47
Structure conservation index	0.90
SVM decision value	1.08
SVM RNA-class probability	0.912166
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12862332 96 + 22224390
AUGUGGAACCUUGGCAUAACUUUUAAUUAGCCCGCAGUGUUGAGUAACUUUUUAAGGAGUUUUUCACCUGCGAAAGUUUAUUAAGU-UUGCAGAAAA
.((..((..(((((...((((((.........(((((.((.(((.((((((....)))))).))))))))))))))))..))))))-)..))..... ( -21.10)
>DroSec_CAF1 60505 96 + 1
AUGUGCAACCUUGGCAUAACUUUUAAUUAGCCCGCAGUGUUGAGUAACUUUUUAAGGAGUUUUUCACCUGCGAAAGUUUAUUAAGU-UUGCAGAAAA
.(.(((((.(((((...((((((.........(((((.((.(((.((((((....)))))).))))))))))))))))..))))).-))))).)... ( -24.90)
>DroSim_CAF1 63726 96 + 1
AUGUGCAACCUUGGCAUAACUUUUAAUUAGCCCGCAGUGUUGAGUAACUUUUUAAGGAGUUUUUCACCUGCGAAAGUUUAUUAAGU-UUGCAGAAAA
.(.(((((.(((((...((((((.........(((((.((.(((.((((((....)))))).))))))))))))))))..))))).-))))).)... ( -24.90)
>DroEre_CAF1 64304 95 + 1
AUAUGGGUCCUUGGCAUAACUUUUAAUUAGCCCGCAGUGUUGGGUAACUUUUUAAAGAGUU-UUCACCUGCAAAAGUUUAUUAAGU-UUGCAGAAAA
...((.(..(((((...(((((((.........((((.((.(((.((((((....))))))-))))))))))))))))..))))).-.).))..... ( -16.90)
>DroYak_CAF1 71937 97 + 1
AUAUGAAACCUUGGCAUAACUUUUAAUUAGCCCGCAGUGUUGAGUAACUUUUUAAGGAGUUUUUCACCUGCGAAAGUUUAUUAGGUUUUGCGGAAAA
..........((.(((.((((..((((.(((.(((((.((.(((.((((((....)))))).))))))))))...))).)))))))).))).))... ( -23.30)
>consensus
AUGUGCAACCUUGGCAUAACUUUUAAUUAGCCCGCAGUGUUGAGUAACUUUUUAAGGAGUUUUUCACCUGCGAAAGUUUAUUAAGU_UUGCAGAAAA
.............(((.....((((((.(((.(((((.((.(((.((((((....)))))).))))))))))...))).))))))...)))...... (-19.90 = -19.62 +  -0.28)

alignment

secondary structure

dotplot

Window 9

Location	12,862,332 – 12,862,428
Length	96
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	94.81
Mean single sequence MFE	-21.08
Consensus MFE	-17.18
Energy contribution	-17.62
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-2.64
Structure conservation index	0.81
SVM decision value	2.22
SVM RNA-class probability	0.990636
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12862332 96 - 22224390
UUUUCUGCAA-ACUUAAUAAACUUUCGCAGGUGAAAAACUCCUUAAAAAGUUACUCAACACUGCGGGCUAAUUAAAAGUUAUGCCAAGGUUCCACAU
..........-........(((((((((((.(((..((((........))))..)))...)))))(((((((.....)))).)))))))))...... ( -19.10)
>DroSec_CAF1 60505 96 - 1
UUUUCUGCAA-ACUUAAUAAACUUUCGCAGGUGAAAAACUCCUUAAAAAGUUACUCAACACUGCGGGCUAAUUAAAAGUUAUGCCAAGGUUGCACAU
.....(((((-.(((..........(((((.(((..((((........))))..)))...)))))(((((((.....)))).)))))).)))))... ( -23.60)
>DroSim_CAF1 63726 96 - 1
UUUUCUGCAA-ACUUAAUAAACUUUCGCAGGUGAAAAACUCCUUAAAAAGUUACUCAACACUGCGGGCUAAUUAAAAGUUAUGCCAAGGUUGCACAU
.....(((((-.(((..........(((((.(((..((((........))))..)))...)))))(((((((.....)))).)))))).)))))... ( -23.60)
>DroEre_CAF1 64304 95 - 1
UUUUCUGCAA-ACUUAAUAAACUUUUGCAGGUGAA-AACUCUUUAAAAAGUUACCCAACACUGCGGGCUAAUUAAAAGUUAUGCCAAGGACCCAUAU
..((((((((-((((....(((((((..((((...-.)).))...))))))).(((........)))........))))).)))..))))....... ( -16.70)
>DroYak_CAF1 71937 97 - 1
UUUUCCGCAAAACCUAAUAAACUUUCGCAGGUGAAAAACUCCUUAAAAAGUUACUCAACACUGCGGGCUAAUUAAAAGUUAUGCCAAGGUUUCAUAU
.........((((((..........(((((.(((..((((........))))..)))...)))))(((((((.....)))).))).))))))..... ( -22.40)
>consensus
UUUUCUGCAA_ACUUAAUAAACUUUCGCAGGUGAAAAACUCCUUAAAAAGUUACUCAACACUGCGGGCUAAUUAAAAGUUAUGCCAAGGUUCCACAU
...................(((((((((((.(((..((((........))))..)))...)))))(((((((.....)))).)))))))))...... (-17.18 = -17.62 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:26 2006