Locus 2671

Sequence ID	X_DroMel_CAF1
Location	7,154,503 – 7,154,611
Length	108
Max. P	0.994914

overview

Window 3

Location	7,154,503 – 7,154,611
Length	108
Sequences	5
Columns	108
Reading direction	forward
Mean pairwise identity	93.46
Mean single sequence MFE	-34.52
Consensus MFE	-29.80
Energy contribution	-29.76
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.66
Structure conservation index	0.86
SVM decision value	1.34
SVM RNA-class probability	0.944222
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7154503 108 + 22224390
UCCUCGAAUGUCCUUUCGGCGGCCAAAAUAGCCGCUGUUGUUGCCGCCGCCAUGGCCACCAGCAAUGGCAAUCCCACACCGACAGCAACAAUCCCCGCCAGCAGCAGC
....((((......))))(((((.......))))).((((((((....(((((.((.....)).)))))...............((..........))..)))))))) ( -30.80)
>DroSec_CAF1 22263 104 + 1
UCCUCGAAUGUCCUUUCGGCGGCCAAAAUAGCCGCUGUUGUUGCUGCCGCCAUGGCCACCAGCAAUGGCAAUCCCACACCGACAGCAACAAUCCCCGCCAGCAG----
....((((......))))(((((.......))))).((((((((((.((...(((...(((....))).....)))...)).))))))))))............---- ( -32.40)
>DroSim_CAF1 16682 104 + 1
UCCUCGAAUGUCCUUUCGGCGGCCAAAAUAGCCGCUGUUGUUGCCGCCGCCAUGGCCACCAGCAAUGGCAAUCCCACACCGACAGCAACAAUCCCCGCCAGCAG----
.....(((......)))((((((.......)))(((((((.((.....(((((.((.....)).))))).......)).)))))))..........))).....---- ( -30.30)
>DroEre_CAF1 23041 107 + 1
CCGUCGAGUGUCCUUUCGGCGGCCAAAAUAGCCGCUGUUGUGGCCGCCGCCAUGGCCACCAGCAAUGGCAAUCCCACACCGACAGCAGCAAUCCCCGCCAGCAGCAG-
..((((.((((......((((((((.(((((...))))).))))))))(((((.((.....)).)))))......)))))))).((.((...........)).))..- ( -43.60)
>DroYak_CAF1 22678 107 + 1
GCAACGAGUGUCCUUUCGGCGGCCAAAAUAGCCGCUGUUGUUGCCGCCGCCAUGGCCACCAGCAAUGGCAAUGCCACACCGACAGCAACCAUCCCCGCCACCAGCAG-
((...(((......)))((((((.......)))(((((((.((..((.(((((.((.....)).)))))...))..)).)))))))..........)))....))..- ( -35.50)
>consensus
UCCUCGAAUGUCCUUUCGGCGGCCAAAAUAGCCGCUGUUGUUGCCGCCGCCAUGGCCACCAGCAAUGGCAAUCCCACACCGACAGCAACAAUCCCCGCCAGCAGCAG_
.....(((......)))((((((.......)))(((((((.((.....(((((.((.....)).))))).......)).)))))))..........)))......... (-29.80 = -29.76 +  -0.04)

alignment

secondary structure

dotplot

Window 4

Location	7,154,503 – 7,154,611
Length	108
Sequences	5
Columns	108
Reading direction	reverse
Mean pairwise identity	93.46
Mean single sequence MFE	-47.02
Consensus MFE	-42.32
Energy contribution	-42.52
Covariance contribution	0.20
Combinations/Pair	1.06
Mean z-score	-1.91
Structure conservation index	0.90
SVM decision value	2.52
SVM RNA-class probability	0.994914
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7154503 108 - 22224390
GCUGCUGCUGGCGGGGAUUGUUGCUGUCGGUGUGGGAUUGCCAUUGCUGGUGGCCAUGGCGGCGGCAACAACAGCGGCUAUUUUGGCCGCCGAAAGGACAUUCGAGGA
(((((((....)))...((((((((((((.(((((..(..(((....)))..)))))).))))))))))))))))((((.....))))(((....)).)......... ( -47.60)
>DroSec_CAF1 22263 104 - 1
----CUGCUGGCGGGGAUUGUUGCUGUCGGUGUGGGAUUGCCAUUGCUGGUGGCCAUGGCGGCAGCAACAACAGCGGCUAUUUUGGCCGCCGAAAGGACAUUCGAGGA
----..((((.......((((((((((((.(((((..(..(((....)))..)))))).))))))))))))))))((((.....))))(((....)).)......... ( -44.81)
>DroSim_CAF1 16682 104 - 1
----CUGCUGGCGGGGAUUGUUGCUGUCGGUGUGGGAUUGCCAUUGCUGGUGGCCAUGGCGGCGGCAACAACAGCGGCUAUUUUGGCCGCCGAAAGGACAUUCGAGGA
----..((((.......((((((((((((.(((((..(..(((....)))..)))))).))))))))))))))))((((.....))))(((....)).)......... ( -44.11)
>DroEre_CAF1 23041 107 - 1
-CUGCUGCUGGCGGGGAUUGCUGCUGUCGGUGUGGGAUUGCCAUUGCUGGUGGCCAUGGCGGCGGCCACAACAGCGGCUAUUUUGGCCGCCGAAAGGACACUCGACGG
-...((((.(((.(((((.((((((((((((((((.....))).)))))((((((........)))))).)))))))).))))).)))(((....)).)....).))) ( -46.20)
>DroYak_CAF1 22678 107 - 1
-CUGCUGGUGGCGGGGAUGGUUGCUGUCGGUGUGGCAUUGCCAUUGCUGGUGGCCAUGGCGGCGGCAACAACAGCGGCUAUUUUGGCCGCCGAAAGGACACUCGUUGC
-((..(((((((.((((((((((((((.(.(((.((...(((((.((.....)).))))).)).))).).)))))))))))))).)))))))..))............ ( -52.40)
>consensus
_CUGCUGCUGGCGGGGAUUGUUGCUGUCGGUGUGGGAUUGCCAUUGCUGGUGGCCAUGGCGGCGGCAACAACAGCGGCUAUUUUGGCCGCCGAAAGGACAUUCGAGGA
...........((((..((((((((((((.(((((..(..(((....)))..)))))).))))))))))))..((((((.....))))))(....)....)))).... (-42.32 = -42.52 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:34 2006