Locus 7824

Sequence ID	X_DroMel_CAF1
Location	19,484,399 – 19,484,559
Length	160
Max. P	0.997802

overview

Window 4

Location	19,484,399 – 19,484,519
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.67
Mean single sequence MFE	-36.12
Consensus MFE	-34.78
Energy contribution	-35.14
Covariance contribution	0.36
Combinations/Pair	1.03
Mean z-score	-1.18
Structure conservation index	0.96
SVM decision value	0.25
SVM RNA-class probability	0.652461
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19484399 120 - 22224390
GGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAACUGAUGCACUUCCUCUGCAUCCUGCUCAACGACAAAGCAUUCCAAUGCAAUGCGGCCGAGUGCCUGGCGCAGAUCACGAACC
.((((.((..(((((((.((.((.....))..(((.....((((((.......))))))........((.((..((((....))))..)))))))))))).)))).)).))))....... ( -32.80)
>DroSec_CAF1 6384 120 - 1
GGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUAUGCAUCCUGCUCAACGACAAAGCAUUCCAAUGCAAUGCGGCUGAGUGCCUGGCGCAGAUCACGAACC
(.(((((((..((((......((.(((....)))))(((.((((((.......))))))..)))...((.((..((((....))))..))))))))..)).))))).)............ ( -37.50)
>DroSim_CAF1 7334 120 - 1
GGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUAUGCAUCCUGCUCAACGACAAAGCAUUCCAAUGCAAUGCGGCUGAGUGCCUGGCGCAGAUCACGAACC
(.(((((((..((((......((.(((....)))))(((.((((((.......))))))..)))...((.((..((((....))))..))))))))..)).))))).)............ ( -37.50)
>DroEre_CAF1 6065 120 - 1
GGGUCAGCAUCCAGCACAUAAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUCUGCAUCCUGCUCAACGACAAAGCAUUCCAGUGCAAUGCGGCUGAGUGCCUUGCGCAGAUCACGAACC
(((...(((((.(((......((.(((....))))).))))))))...)))(((((.....(((((.((.((..((((....))))..))))..)))))((...)))))))......... ( -34.60)
>DroYak_CAF1 5620 120 - 1
GGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUCUGCAUCCUGCUCAACGACAAAGCAUUCCAGUGCAAUGCGGCUGAGUGCCUGGCGCAGAUCACGAACC
(.(((((((..((((......((.(((....)))))(((.((((((.......))))))..)))...((.((..((((....))))..))))))))..)).))))).)............ ( -38.20)
>consensus
GGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUCUGCAUCCUGCUCAACGACAAAGCAUUCCAAUGCAAUGCGGCUGAGUGCCUGGCGCAGAUCACGAACC
(.(((((((..((((......((.(((....)))))(((.((((((.......))))))..)))...((.((..((((....))))..))))))))..)).))))).)............ (-34.78 = -35.14 +   0.36)

alignment

secondary structure

dotplot

Window 5

Location	19,484,439 – 19,484,559
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.33
Mean single sequence MFE	-42.10
Consensus MFE	-38.50
Energy contribution	-39.30
Covariance contribution	0.80
Combinations/Pair	1.00
Mean z-score	-2.23
Structure conservation index	0.91
SVM decision value	2.93
SVM RNA-class probability	0.997802
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19484439 120 - 22224390
GUCGAGAUGGUACUGCUCACGCUGAGCGGCUUCGUCGAGUGGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAACUGAUGCACUUCCUCUGCAUCCUGCUCAACGACAAAGCAUUC
((((.(((((..((((((.....))))))..)))))(((..((...(((...((..(((((((.(((....)))))...)))))..)).....)))..))..)))..))))......... ( -43.20)
>DroSec_CAF1 6424 120 - 1
GUCGAGAUGGUACUGCUCACGCUGAGCGGCUUCGUCGAGUGGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUAUGCAUCCUGCUCAACGACAAAGCAUUC
((((.(((((..((((((.....))))))..)))))(((..((...((((..((..(((((((.(((....)))))...)))))..))....))))..))..)))..))))......... ( -44.60)
>DroSim_CAF1 7374 120 - 1
GUCGAGAUGGUACUGCUCACGCUGAGCGGCUUCGUCGAGUGGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUAUGCAUCCUGCUCAACGACAAAGCAUUC
((((.(((((..((((((.....))))))..)))))(((..((...((((..((..(((((((.(((....)))))...)))))..))....))))..))..)))..))))......... ( -44.60)
>DroEre_CAF1 6105 120 - 1
GUCGAAAUGGUGCUGCUCACCCUAAGCGGCUUCGUCGAGUGGGUCAGCAUCCAGCACAUAAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUCUGCAUCCUGCUCAACGACAAAGCAUUC
((((.....((((((((.((((....((((...))))...)))).)))....)))))....((.(((....)))))(((.((((((.......))))))..)))...))))......... ( -39.30)
>DroYak_CAF1 5660 120 - 1
GUCGAAAUGGUACUGCUCACGCUGAGCGGCUUCGUCGAGUGGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUCUGCAUCCUGCUCAACGACAAAGCAUUC
((((..((((..((((((.....))))))..)))).(((..((...(((...((..(((((((.(((....)))))...)))))..)).....)))..))..)))..))))......... ( -38.80)
>consensus
GUCGAGAUGGUACUGCUCACGCUGAGCGGCUUCGUCGAGUGGGUCAGCAUCCAGCACAUCAUGUCCAGCAAUGGCAAGCUGAUGCACUUCCUCUGCAUCCUGCUCAACGACAAAGCAUUC
((((.(((((..((((((.....))))))..)))))(((..((...(((...((..(((((((.(((....)))))...)))))..)).....)))..))..)))..))))......... (-38.50 = -39.30 +   0.80)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:25 2006