Locus 3708

Sequence ID	3L_DroMel_CAF1
Location	10,772,763 – 10,772,876
Length	113
Max. P	0.939082

overview

Window 5

Location	10,772,763 – 10,772,876
Length	113
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	85.45
Mean single sequence MFE	-27.90
Consensus MFE	-23.75
Energy contribution	-24.42
Covariance contribution	0.67
Combinations/Pair	1.00
Mean z-score	-2.57
Structure conservation index	0.85
SVM decision value	1.30
SVM RNA-class probability	0.939082
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10772763 113 + 23771897
CGCAUUGAAAAUCGCUGCAAAUGAGGCAGCGUGAAAAAUGCGCGACUGUCGAAAUUGUUUUUGGCAAAAAUUUCAGGCAGGUU--GACUGACAAAAAAAAAAGAAAAA-AAAA----UGA
((((((......((((((.......)))))).....))))))((((((((((((((............)))))).)))).)))--)......................-....----... ( -27.30)
>DroSec_CAF1 106331 105 + 1
CGCAUUGAAAAUCGCUGCAAAUGAGGCAGCGUGAAAAAUGCGCGACUGUCGAAAUUGUUUUUGGCAAAAAUUUCAGGCAGGUU--GACUGACAAAAAAA--------A-AAAA----UGU
((((((......((((((.......)))))).....))))))((((((((((((((............)))))).)))).)))--).............--------.-....----... ( -27.30)
>DroSim_CAF1 109293 102 + 1
CGCAUUGAAAAUCGCUGCAAAUGAGGCAGCGUGAAAAAUGCGCGACUGUCGAAAUUGUUUUUGGCAAAAAUUUCAGGCAGGUU--GACUGACAAAA-----------A-AAAA----UGG
((((((......((((((.......)))))).....))))))((((((((((((((............)))))).)))).)))--)..........-----------.-....----... ( -27.30)
>DroEre_CAF1 111481 111 + 1
CGCAUUGAAAAUCGCUGCAAAUGAGGCAGCGUGAAAAAUGCGCGACUGUCGAAAUUGUUUUUGGUAAAAAUUUCAGGCAGGUU--GACUGACAAAAAAAG---AAAAAAUACG----GAG
((((((......((((((.......)))))).....))))))((.(((((((((((............)))))).)))))(((--....)))........---........))----... ( -27.90)
>DroYak_CAF1 122757 105 + 1
CGCAUUAAAAAUCGCUGCAAAUGAGGCAGCGUGAAAAAUGCGCGACUGUCGAAAUUGUUUUUGGUAAAAAUUUCAGGCAGGUU--GACUGACAAAAUAAA---------GUGG----UGG
((((((......((((((.......)))))).....))))))((((((((((((((............)))))).)))).)))--)(((.((........---------))))----).. ( -26.40)
>DroAna_CAF1 107283 117 + 1
CGCAUUGAAAAUCGCUGCAAAUGAGGCAGCGUGAAAAAUGCGCGACUGUCGAAAUUGUUUUUGGAAAAAAUAUCAACCAAGUAGCGACAGCCCCAAAAAA---AAACUUGACAGCCCUGG
((((((......((((((.......)))))).....))))))...(((((((.....(((((((......(((.......)))((....)).))))))).---....)))))))...... ( -31.20)
>consensus
CGCAUUGAAAAUCGCUGCAAAUGAGGCAGCGUGAAAAAUGCGCGACUGUCGAAAUUGUUUUUGGCAAAAAUUUCAGGCAGGUU__GACUGACAAAAAAAA_______A_AAAA____UGG
((((((......((((((.......)))))).....))))))...(((((((((((............)))))).)))))........................................ (-23.75 = -24.42 +   0.67)

alignment

secondary structure

dotplot

Window 6

Location	10,772,763 – 10,772,876
Length	113
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	85.45
Mean single sequence MFE	-23.35
Consensus MFE	-18.56
Energy contribution	-18.58
Covariance contribution	0.03
Combinations/Pair	1.04
Mean z-score	-2.07
Structure conservation index	0.79
SVM decision value	0.31
SVM RNA-class probability	0.682841
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10772763 113 - 23771897
UCA----UUUU-UUUUUCUUUUUUUUUUGUCAGUC--AACCUGCCUGAAAUUUUUGCCAAAAACAAUUUCGACAGUCGCGCAUUUUUCACGCUGCCUCAUUUGCAGCGAUUUUCAAUGCG
...----....-..............(((((((.(--.....).))((((((.((......)).)))))))))))...((((((.....((((((.......))))))......)))))) ( -21.10)
>DroSec_CAF1 106331 105 - 1
ACA----UUUU-U--------UUUUUUUGUCAGUC--AACCUGCCUGAAAUUUUUGCCAAAAACAAUUUCGACAGUCGCGCAUUUUUCACGCUGCCUCAUUUGCAGCGAUUUUCAAUGCG
...----....-.--------.....(((((((.(--.....).))((((((.((......)).)))))))))))...((((((.....((((((.......))))))......)))))) ( -21.10)
>DroSim_CAF1 109293 102 - 1
CCA----UUUU-U-----------UUUUGUCAGUC--AACCUGCCUGAAAUUUUUGCCAAAAACAAUUUCGACAGUCGCGCAUUUUUCACGCUGCCUCAUUUGCAGCGAUUUUCAAUGCG
...----....-.-----------..(((((((.(--.....).))((((((.((......)).)))))))))))...((((((.....((((((.......))))))......)))))) ( -21.10)
>DroEre_CAF1 111481 111 - 1
CUC----CGUAUUUUUU---CUUUUUUUGUCAGUC--AACCUGCCUGAAAUUUUUACCAAAAACAAUUUCGACAGUCGCGCAUUUUUCACGCUGCCUCAUUUGCAGCGAUUUUCAAUGCG
...----..........---......(((((((.(--.....).))((((((.((......)).)))))))))))...((((((.....((((((.......))))))......)))))) ( -20.20)
>DroYak_CAF1 122757 105 - 1
CCA----CCAC---------UUUAUUUUGUCAGUC--AACCUGCCUGAAAUUUUUACCAAAAACAAUUUCGACAGUCGCGCAUUUUUCACGCUGCCUCAUUUGCAGCGAUUUUUAAUGCG
...----....---------......(((((((.(--.....).))((((((.((......)).)))))))))))...((((((.....((((((.......))))))......)))))) ( -20.90)
>DroAna_CAF1 107283 117 - 1
CCAGGGCUGUCAAGUUU---UUUUUUGGGGCUGUCGCUACUUGGUUGAUAUUUUUUCCAAAAACAAUUUCGACAGUCGCGCAUUUUUCACGCUGCCUCAUUUGCAGCGAUUUUCAAUGCG
....((((((((((((.---.(((((((((.(((((((....)).)))))....))))))))).))))).))))))).((((((.....((((((.......))))))......)))))) ( -35.70)
>consensus
CCA____UUUU_U_______UUUUUUUUGUCAGUC__AACCUGCCUGAAAUUUUUGCCAAAAACAAUUUCGACAGUCGCGCAUUUUUCACGCUGCCUCAUUUGCAGCGAUUUUCAAUGCG
........................................(((..(((((((.((......)).))))))).)))...((((((.....((((((.......))))))......)))))) (-18.56 = -18.58 +   0.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:04:53 2006