Locus 842

Sequence ID	X_DroMel_CAF1
Location	2,361,550 – 2,361,640
Length	90
Max. P	0.995855

overview

Window 0

Location	2,361,550 – 2,361,640
Length	90
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	72.13
Mean single sequence MFE	-25.02
Consensus MFE	-12.96
Energy contribution	-13.88
Covariance contribution	0.92
Combinations/Pair	1.06
Mean z-score	-2.43
Structure conservation index	0.52
SVM decision value	2.62
SVM RNA-class probability	0.995855
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2361550 90 + 22224390
-AAGGAUA-GGGAAUCCGUGUCAAAAACCAGUGACAGUUGUCAGUGCAGCGAUGCACUGCGAGAAACACUUGUAUUGUAUUCAUGUUAUUUA--------
-...((((-.((...)).)))).......((((((((((((....)))))((((((.((((((.....)))))).))))))..)))))))..-------- ( -23.60)
>DroSec_CAF1 6133 89 + 1
-AAGGAUA-GGGAAUCCGUGUCAAAAACCAGUGACAGUUGUCAGUGCAGCGAUGCACUGCGAGAAACACUU-UCCUCUGUUGAAGUAUUUCA--------
-..((((.-....)))).(((((........))))).(((.(((((((....))))))))))((((.((((-(........))))).)))).-------- ( -25.20)
>DroEre_CAF1 6849 96 + 1
-AAGGAGA-GGGAAUCCGUGUCAAAAACCAGUGACAGUUGUCAGUGCAGCGAUGCACUGGCAGAAACACUU-UCUACUCUUGAAAAAUUUCAU-UGCCUG
-.((((((-(((((....(((((........))))).(((((((((((....))))))))))).......)-))).))))((((....)))).-..))). ( -29.10)
>DroYak_CAF1 6497 98 + 1
GAAGGAGC-GGGAAUCCGUGUCAAAAACCAGUGACAGUUGUCAGUGCAGCGAUACACUGCAAGAAACACUU-UCCAGUAUCGAAAUAUGUCAUAUGCCUG
..(((.((-((....))))...........((((((....((..(((((.......))))).((.((....-....)).))))....))))))...))). ( -22.00)
>DroAna_CAF1 5619 71 + 1
GAAAGACAGGGGAAACCGUGUCAAAAACCAGUGACAGUUGUCAGUGAAG----ACACUGAGAGAAAAGU-----------------GGGGGG--------
....((((.((....)).)))).....(((.(.....((.((((((...----.)))))).))...).)-----------------))....-------- ( -25.20)
>consensus
_AAGGAGA_GGGAAUCCGUGUCAAAAACCAGUGACAGUUGUCAGUGCAGCGAUGCACUGCGAGAAACACUU_UCCACUAUUGAAAUAUUUCA________
....((((.((....)).))))......(((((...(((((....)))))....)))))......................................... (-12.96 = -13.88 +   0.92)

alignment

secondary structure

dotplot

Window 1

Location	2,361,550 – 2,361,640
Length	90
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	72.13
Mean single sequence MFE	-21.31
Consensus MFE	-12.98
Energy contribution	-13.62
Covariance contribution	0.64
Combinations/Pair	1.19
Mean z-score	-1.91
Structure conservation index	0.61
SVM decision value	1.51
SVM RNA-class probability	0.959733
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 2361550 90 - 22224390
--------UAAAUAACAUGAAUACAAUACAAGUGUUUCUCGCAGUGCAUCGCUGCACUGACAACUGUCACUGGUUUUUGACACGGAUUCCC-UAUCCUU-
--------...............(((.((.((((.......(((((((....)))))))........)))).))..)))....((((....-.))))..- ( -19.96)
>DroSec_CAF1 6133 89 - 1
--------UGAAAUACUUCAACAGAGGA-AAGUGUUUCUCGCAGUGCAUCGCUGCACUGACAACUGUCACUGGUUUUUGACACGGAUUCCC-UAUCCUU-
--------.((((((((((.......).-)))))))))..((((((((....))))))).)...(((((........))))).((((....-.))))..- ( -24.40)
>DroEre_CAF1 6849 96 - 1
CAGGCA-AUGAAAUUUUUCAAGAGUAGA-AAGUGUUUCUGCCAGUGCAUCGCUGCACUGACAACUGUCACUGGUUUUUGACACGGAUUCCC-UCUCCUU-
.(((..-.((((....))))((((..((-..(((((...(((((((((....)))))((((....)))).))))....)))))...))..)-)))))).- ( -25.10)
>DroYak_CAF1 6497 98 - 1
CAGGCAUAUGACAUAUUUCGAUACUGGA-AAGUGUUUCUUGCAGUGUAUCGCUGCACUGACAACUGUCACUGGUUUUUGACACGGAUUCCC-GCUCCUUC
..(((...(((((......((((((...-.))))))..((((((((((....))))))).))).)))))((((((...))).)))......-)))..... ( -24.00)
>DroAna_CAF1 5619 71 - 1
--------CCCCCC-----------------ACUUUUCUCUCAGUGU----CUUCACUGACAACUGUCACUGGUUUUUGACACGGUUUCCCCUGUCUUUC
--------....((-----------------(........((((((.----...))))))..........))).....((((.((....)).)))).... ( -13.07)
>consensus
________UGAAAUACUUCAAUACAAGA_AAGUGUUUCUCGCAGUGCAUCGCUGCACUGACAACUGUCACUGGUUUUUGACACGGAUUCCC_UAUCCUU_
.........................................(((((((....))))))).....(((((........))))).((((......))))... (-12.98 = -13.62 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:55:07 2006