Locus 5751

Sequence ID	3L_DroMel_CAF1
Location	15,629,202 – 15,629,360
Length	158
Max. P	0.859277

overview

Window 1

Location	15,629,202 – 15,629,320
Length	118
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	94.67
Mean single sequence MFE	-43.65
Consensus MFE	-35.90
Energy contribution	-35.40
Covariance contribution	-0.50
Combinations/Pair	1.12
Mean z-score	-2.28
Structure conservation index	0.82
SVM decision value	0.69
SVM RNA-class probability	0.823571
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15629202 118 - 23771897
AAAACGUGUGCCCAUCUAUUGGGG-GGGUUUUUUGUGGGGUGUUUCGCAGUUAUGGAAGGGGGAG-CGCUCCAUAAAAGGGGGUGGUUCGCUGCACUGGGUGGGUUUCGGUGGUUUGGCC
....((...(((((((((.((.((-.((((((((((((((((((((.(..((...))..).))))-)))))))))))))).......)).)).)).)))))))))..))........... ( -42.91)
>DroSec_CAF1 51431 117 - 1
AAAACGUGUGCCCAUCUAUUGGG--GGGUUUUUUGUGGGGUGUUUCGCAGUUAUGGAAUGGGGAG-CGCUCCAUAAAAGGGGGUGGUUCACUGCACUGGGUGGGUUUCGGUGGUUUGGCC
....((...(((((((((.((.(--(..((((((((((((((((((.((.........)).))))-)))))))))))))).((....)).)).)).)))))))))..))........... ( -43.20)
>DroSim_CAF1 52438 119 - 1
AAAACGUGUGCCCAUCUAUUGGGGGGGGUUUUUUGUGGGGUGCUUCGCAGUUGUGGAAUGGGGAG-CGCUCCAUAAAAGGGGGUGGUUCACUGCACUGGGUGGGUUUUGGUGGUUUGGCC
....((...(((((((((.((.((.(..((((((((((((((((((.((.........)).))))-)))))))))))))......)..).)).)).)))))))))..))........... ( -44.30)
>DroYak_CAF1 55998 118 - 1
AAAACGUGUGCCCAUCUAUUGGG--GGGUUUUUUGUGGGGUGCUUUGCAGUUAUGGAACGGGGGGCCGCUCCAUAAAAGGGGGUGGUUCCCUGCACUGGGUGGGUUUGGGUGGUUUGGCC
...((.((.(((((((((.((..--.......(((..((....))..)))........((((((((((((((.......)))))))))))))))).))))))))).)).))......... ( -44.20)
>consensus
AAAACGUGUGCCCAUCUAUUGGG__GGGUUUUUUGUGGGGUGCUUCGCAGUUAUGGAAUGGGGAG_CGCUCCAUAAAAGGGGGUGGUUCACUGCACUGGGUGGGUUUCGGUGGUUUGGCC
....((...(((((((((..........((((((((((((((((((.(...........).)))).))))))))))))))..(..(....)..)..)))))))))..))........... (-35.90 = -35.40 +  -0.50)

alignment

secondary structure

dotplot

Window 2

Location	15,629,242 – 15,629,360
Length	118
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	95.65
Mean single sequence MFE	-40.30
Consensus MFE	-35.83
Energy contribution	-35.45
Covariance contribution	-0.38
Combinations/Pair	1.08
Mean z-score	-2.02
Structure conservation index	0.89
SVM decision value	0.82
SVM RNA-class probability	0.859277
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15629242 118 - 23771897
UAUUACAUGCGGAUUAGCAUUUCCUCAUCGGGAUUGCAACAAAACGUGUGCCCAUCUAUUGGGG-GGGUUUUUUGUGGGGUGUUUCGCAGUUAUGGAAGGGGGAG-CGCUCCAUAAAAGG
.....((((((..((.(((.((((.....)))).)))...))..))))))((((.....)))).-....(((((((((((((((((.(..((...))..).))))-))))))))))))). ( -40.30)
>DroSec_CAF1 51471 117 - 1
UAUUACAUGCGGAUUAGCAUUUCCUCAUCGGUAUUGCAACAAAACGUGUGCCCAUCUAUUGGG--GGGUUUUUUGUGGGGUGUUUCGCAGUUAUGGAAUGGGGAG-CGCUCCAUAAAAGG
.....((((((..((.(((...((.....))...)))...))..))))))((((.....))))--....(((((((((((((((((.((.........)).))))-))))))))))))). ( -38.90)
>DroSim_CAF1 52478 119 - 1
UAUUACAUGCGGAUUAGCAUUUCCUCAUCGGGAUUGCAACAAAACGUGUGCCCAUCUAUUGGGGGGGGUUUUUUGUGGGGUGCUUCGCAGUUGUGGAAUGGGGAG-CGCUCCAUAAAAGG
.....((((((..((.(((.((((.....)))).)))...))..))))))((((.....))))......(((((((((((((((((.((.........)).))))-))))))))))))). ( -44.20)
>DroYak_CAF1 56038 118 - 1
UAUUACAUGCGGAUUAGCAUUUCCUCAUCGGGAUUGCAACAAAACGUGUGCCCAUCUAUUGGG--GGGUUUUUUGUGGGGUGCUUUGCAGUUAUGGAACGGGGGGCCGCUCCAUAAAAGG
.....((((((..((.(((.((((.....)))).)))...))..))))))((((.....))))--....(((((((((((((((((.(.(((....)))).)))).))))))))))))). ( -37.80)
>consensus
UAUUACAUGCGGAUUAGCAUUUCCUCAUCGGGAUUGCAACAAAACGUGUGCCCAUCUAUUGGG__GGGUUUUUUGUGGGGUGCUUCGCAGUUAUGGAAUGGGGAG_CGCUCCAUAAAAGG
.....((((((..((.(((.((((.....)))).)))...))..))))))((((.....))))......(((((((((((((((((.(...........).)))).))))))))))))). (-35.83 = -35.45 +  -0.38)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:46 2006