Locus 5742

Sequence ID	2R_DroMel_CAF1
Location	18,192,326 – 18,192,420
Length	94
Max. P	0.995006

overview

Window 4

Location	18,192,326 – 18,192,420
Length	94
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	94.32
Mean single sequence MFE	-23.48
Consensus MFE	-21.50
Energy contribution	-21.78
Covariance contribution	0.28
Combinations/Pair	1.04
Mean z-score	-1.72
Structure conservation index	0.92
SVM decision value	2.14
SVM RNA-class probability	0.988929
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18192326 94 + 20766785
U-------UAUAUAUCGGCAUCUGCAUCUCUGGCUGGCUGCACAUUUCAUUGCAAUUGCAUUAGUGCUGGGCCCUUUGUUCAUUACAAAAUGCAGAAACCC
.-------........((..(((((((....((((.(..((((.......(((....)))...))))).)))).(((((.....))))))))))))..)). ( -24.30)
>DroSec_CAF1 17628 94 + 1
U-------UAUAUAUCGGCAUCUGUAUCUCUGGCUGGCUGCACAUUUCAUUGCAAUUGCAUUAGUGCUGGGCCCUUUGUUCAUUACAAAAUGCAGAAACCC
.-------........((..(((((((....((((.(..((((.......(((....)))...))))).)))).(((((.....))))))))))))..)). ( -22.30)
>DroSim_CAF1 17662 94 + 1
U-------UAUAUAUCGGCAUCUGCAUCUCUGGCUGGCUGCACAUUUCAUUGCAAUUGCAUUAGUGCUGGGCCCUUUGUUCAUUACAAAAUGCAGAAACCC
.-------........((..(((((((....((((.(..((((.......(((....)))...))))).)))).(((((.....))))))))))))..)). ( -24.30)
>DroEre_CAF1 18170 94 + 1
U-------UAUAUAUCGGCAUCUGCAUCUCUGGCUGGCUGCACAUUUCAUUGCAAUUGCAUUAGUGCUGGGCCCUUUGUUCAUUACAAAAUGCAGAAACCC
.-------........((..(((((((....((((.(..((((.......(((....)))...))))).)))).(((((.....))))))))))))..)). ( -24.30)
>DroAna_CAF1 17221 100 + 1
UAGCAUAGCAUAUAUCGGCAUCUGAAUCUCUGGCUGGCUGCACAUUUCAUUGCAAUUGCAUUAGUGCA-GGCCCUUUGUUCAUUACAAAAUGCAGACACAC
..((((.((.....(((((....(.....)..)))))((((((.......(((....)))...)))))-)))..(((((.....)))))))))........ ( -22.20)
>consensus
U_______UAUAUAUCGGCAUCUGCAUCUCUGGCUGGCUGCACAUUUCAUUGCAAUUGCAUUAGUGCUGGGCCCUUUGUUCAUUACAAAAUGCAGAAACCC
................((..(((((((....((((....((((.......(((....)))...))))..)))).(((((.....))))))))))))..)). (-21.50 = -21.78 +   0.28)

alignment

secondary structure

dotplot

Window 5

Location	18,192,326 – 18,192,420
Length	94
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	94.32
Mean single sequence MFE	-26.16
Consensus MFE	-23.74
Energy contribution	-24.34
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.89
Structure conservation index	0.91
SVM decision value	2.53
SVM RNA-class probability	0.995006
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18192326 94 - 20766785
GGGUUUCUGCAUUUUGUAAUGAACAAAGGGCCCAGCACUAAUGCAAUUGCAAUGAAAUGUGCAGCCAGCCAGAGAUGCAGAUGCCGAUAUAUA-------A
.(((.((((((((((((.....))....(((...((((...(((....))).......)))).))).....)))))))))).)))........-------. ( -27.50)
>DroSec_CAF1 17628 94 - 1
GGGUUUCUGCAUUUUGUAAUGAACAAAGGGCCCAGCACUAAUGCAAUUGCAAUGAAAUGUGCAGCCAGCCAGAGAUACAGAUGCCGAUAUAUA-------A
.(((.((((..((((((.....))))))(((...((((...(((....))).......)))).)))...........)))).)))........-------. ( -21.50)
>DroSim_CAF1 17662 94 - 1
GGGUUUCUGCAUUUUGUAAUGAACAAAGGGCCCAGCACUAAUGCAAUUGCAAUGAAAUGUGCAGCCAGCCAGAGAUGCAGAUGCCGAUAUAUA-------A
.(((.((((((((((((.....))....(((...((((...(((....))).......)))).))).....)))))))))).)))........-------. ( -27.50)
>DroEre_CAF1 18170 94 - 1
GGGUUUCUGCAUUUUGUAAUGAACAAAGGGCCCAGCACUAAUGCAAUUGCAAUGAAAUGUGCAGCCAGCCAGAGAUGCAGAUGCCGAUAUAUA-------A
.(((.((((((((((((.....))....(((...((((...(((....))).......)))).))).....)))))))))).)))........-------. ( -27.50)
>DroAna_CAF1 17221 100 - 1
GUGUGUCUGCAUUUUGUAAUGAACAAAGGGCC-UGCACUAAUGCAAUUGCAAUGAAAUGUGCAGCCAGCCAGAGAUUCAGAUGCCGAUAUAUGCUAUGCUA
(((((((.(((((......((((.....((((-(((((...(((....))).......))))))...))).....))))))))).)))))))......... ( -26.80)
>consensus
GGGUUUCUGCAUUUUGUAAUGAACAAAGGGCCCAGCACUAAUGCAAUUGCAAUGAAAUGUGCAGCCAGCCAGAGAUGCAGAUGCCGAUAUAUA_______A
.((..((((((((((((.....))....(((...((((...(((....))).......)))).))).....))))))))))..))................ (-23.74 = -24.34 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:12 2006