Locus 7125

Sequence ID	3L_DroMel_CAF1
Location	19,174,732 – 19,174,915
Length	183
Max. P	0.559629

overview

Window 2

Location	19,174,732 – 19,174,835
Length	103
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	84.96
Mean single sequence MFE	-36.10
Consensus MFE	-19.96
Energy contribution	-20.24
Covariance contribution	0.28
Combinations/Pair	1.04
Mean z-score	-2.47
Structure conservation index	0.55
SVM decision value	0.05
SVM RNA-class probability	0.559629
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19174732 103 + 23771897
AAGUGACUUGGCCCCUUUCCUUCGGCUCCAGCCAUCGAGCCAUCCAGUUUUCCUUU-AAGAAAAGCG----------------GAGGCCGGGAAGCCAGGCGGCAUUUUUCAUUUUUAGU
((((((....((((((...(((((((....))).(((.(((.(((..(((((....-..)))))..)----------------))))))))))))..))).))).....))))))..... ( -34.10)
>DroSec_CAF1 3379 102 + 1
AAGUGACUUGGCCCCUUUCCUUCGGCUCCAGCCAUCGAGCCAUCCAGUUUUCC--UAAAGAAAAGCG----------------GAGGCCGGGGAGCCAGGCGGCAUUUUUCAUUUUUAGU
..((..((((((((((..((((((((((........))))).....(((((.(--....).))))))----------------))))..)))).))))))..))................ ( -36.90)
>DroSim_CAF1 6300 96 + 1
AAGUGACUUGGCCCCUUUCCUUCGGCUUCAGC--------CAUCCAGUUUUCCUUUAAGGAAAAGCU----------------GAGGCCGGGAAGCCAGGCGGCAUUUUUCAUUUUUAGU
((((((....((((((((((..((((((((((--------.......((((((.....)))))))))----------------)))))))))))...))).))).....))))))..... ( -36.91)
>DroEre_CAF1 6029 111 + 1
AAGUGACUUGGCCCCUUUCCUUCGGCUCCAGC--------CUUCCAGUUUUCCUUU-AAGAAAAGCGAAGGCCGGGAGGCCGGGAGGCCGGGAAGCCAGUCGGCAUUUUUCAUUUUUAGU
..((((((.(((....((((..(((((((.((--------(((((.((((((((((-....)))).)))))).)))))))..))).))))))))))))))).))................ ( -44.60)
>DroYak_CAF1 7934 95 + 1
AAGUGUCUUGGCCCCUUUCCUUCGGCUCGAGC--------CUUCCAGUUUUCCUUU-AAGAAAAGCG----------------GAGGCCGGGAAGCCAGUCGGCAUUUUUCAUUUUUAGU
(((((((((((((..........(((....))--------).(((..(((((....-..)))))..)----------------)))))))))).(((....)))......)))))..... ( -28.00)
>consensus
AAGUGACUUGGCCCCUUUCCUUCGGCUCCAGC________CAUCCAGUUUUCCUUU_AAGAAAAGCG________________GAGGCCGGGAAGCCAGGCGGCAUUUUUCAUUUUUAGU
(((((((((((((...........((....))..............(((((.((....)).)))))...................)))))))..(((....))).....))))))..... (-19.96 = -20.24 +   0.28)

alignment

secondary structure

dotplot

Window 3

Location	19,174,798 – 19,174,915
Length	117
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.80
Mean single sequence MFE	-18.86
Consensus MFE	-18.40
Energy contribution	-18.40
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.12
Structure conservation index	0.98
SVM decision value	0.05
SVM RNA-class probability	0.556528
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19174798 117 - 23771897
AACAACAUUUUCAAUUGACAAUUUAAACUUUUAUCUCGGAAGACAUUUUACAUAAAAGUUUUGUGUUAAAAAUUUGCCCAACUAAAAAUGAAAAAUGCCGCCUGGCUUCCCGGCCUC---
.......((((((.((((((....((((((((((.((....))........))))))))))..))))))...((((......))))..)))))).....(((.((...)).)))...--- ( -18.90)
>DroSec_CAF1 3444 117 - 1
AACAACAUUUUCAAUUGACAAUUUAAACUUUUAUCUCGGAAGACAUUUUACAUAAAAGUUUUGUGUUAAAAAUUUGCCCAACUAAAAAUGAAAAAUGCCGCCUGGCUCCCCGGCCUC---
.......((((((.((((((....((((((((((.((....))........))))))))))..))))))...((((......))))..)))))).....(((.((...)).)))...--- ( -18.90)
>DroSim_CAF1 6359 117 - 1
AACAACAUUUUCAAUUGACAAUUUAAACUUUUAUCUCGGAAGACAUUUUACAUAAAAGUUUUGUGUUAAAAAUUUGCCCAACUAAAAAUGAAAAAUGCCGCCUGGCUUCCCGGCCUC---
.......((((((.((((((....((((((((((.((....))........))))))))))..))))))...((((......))))..)))))).....(((.((...)).)))...--- ( -18.90)
>DroEre_CAF1 6100 120 - 1
AACAACAUUUUCAAUUGACAAUUUAAACUUUUAUCUCGGAAGACAUUUUACAUAAAAGUUUUGUGUUAAAAAUUUGCCCAACUAAAAAUGAAAAAUGCCGACUGGCUUCCCGGCCUCCCG
.......((((((.((((((....((((((((((.((....))........))))))))))..))))))...((((......))))..))))))..((((..........))))...... ( -18.80)
>DroYak_CAF1 7992 116 - 1
AACAACAUUUUCAAUUGACAAUUUAAACUUUUAUCUCGGAAGACAUUUUACAUAAAAGUUUUGUGUUAAAAAUUUGC-CAACUAAAAAUGAAAAAUGCCGACUGGCUUCCCGGCCUC---
.......((((((.((((((....((((((((((.((....))........))))))))))..))))))...(((..-......))).))))))..((((..........))))...--- ( -18.80)
>consensus
AACAACAUUUUCAAUUGACAAUUUAAACUUUUAUCUCGGAAGACAUUUUACAUAAAAGUUUUGUGUUAAAAAUUUGCCCAACUAAAAAUGAAAAAUGCCGCCUGGCUUCCCGGCCUC___
.......((((((.((((((....((((((((((.((....))........))))))))))..))))))...((((......))))..)))))).........((((....))))..... (-18.40 = -18.40 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:38:34 2006