Locus 148

Sequence ID	4_DroMel_CAF1
Location	985,034 – 985,128
Length	94
Max. P	0.991119

overview

Window 4

Location	985,034 – 985,128
Length	94
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	91.46
Mean single sequence MFE	-32.40
Consensus MFE	-25.20
Energy contribution	-25.08
Covariance contribution	-0.12
Combinations/Pair	1.07
Mean z-score	-1.51
Structure conservation index	0.78
SVM decision value	0.08
SVM RNA-class probability	0.573200
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 985034 94 + 1281640
GACUGUUGCAGCUGCUACCGCCGUUACUCCAACUACAGCAGCGGCUGCAGCUACUGUUCCGUAGUUGUACUGGCUGUCGAUCUGCGAGCGUUGU
(((.((((((((((((...((.((..........)).))))))))))))))....((((.(((((((.((.....))))).))))))))))).. ( -32.50)
>DroSec_CAF1 18017 94 + 1
GACUGUUGCAGCUGCUACCGCCGUUACACCAACCACAGCAGCGGCUGCAGCUACAGUUCCGUAGUUGUACUGGCUGUCGAUCUGCGAGCGUUGU
(((.((((((((((((...((.((..........)).))))))))))))))....((((.(((((((.((.....))))).))))))))))).. ( -32.00)
>DroSim_CAF1 15661 94 + 1
GACUGUUGCAGCUGCUACCGCCGUUACACCAACUACAGCAGCGGCUGCAGCUACAGUUCCGUAGUUGUACUGGCUGUCGAUCUGCGAGCGUUGU
(((.((((((((((((...((.((..........)).))))))))))))))....((((.(((((((.((.....))))).))))))))))).. ( -32.70)
>DroEre_CAF1 18864 91 + 1
GACAGUUGCAGCUGCUACCGCCGUUACUCCAACUACAGCAGCGGCUGCAGCUACAGUACCGUAGUUGUACUGGUUGUCUAUCUG---CCGUUGU
((((((((((((((((...((.((..........)).))))))))))))))).((((((.......))))))...)))......---....... ( -33.10)
>DroYak_CAF1 19209 91 + 1
AACAGUUGCAGCUGCUACCGCCGUCACUCCAACCACUGCAGCGGCUGCAGCUACAGUACCGUAAUUGUACUGGCUGUCUAUCGG---GCGUUGU
((((((((((((((((...((.((..........)).))))))))))))))).((((((.......))))))...(((.....)---))))).. ( -31.70)
>consensus
GACUGUUGCAGCUGCUACCGCCGUUACUCCAACUACAGCAGCGGCUGCAGCUACAGUUCCGUAGUUGUACUGGCUGUCGAUCUGCGAGCGUUGU
(((.((((((((((((...((.((..........)).)))))))))))))).(((((...(((....)))..)))))............))).. (-25.20 = -25.08 +  -0.12)

alignment

secondary structure

dotplot

Window 5

Location	985,034 – 985,128
Length	94
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	91.46
Mean single sequence MFE	-34.26
Consensus MFE	-29.60
Energy contribution	-29.44
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-2.04
Structure conservation index	0.86
SVM decision value	2.25
SVM RNA-class probability	0.991119
Prediction	RNA

Download alignment: ClustalW | MAF

>4_DroMel_CAF1 985034 94 - 1281640
ACAACGCUCGCAGAUCGACAGCCAGUACAACUACGGAACAGUAGCUGCAGCCGCUGCUGUAGUUGGAGUAACGGCGGUAGCAGCUGCAACAGUC
.........((((....((.(((.((.(((((((((..(((..((....))..)))))))))))).....))))).)).....))))....... ( -31.00)
>DroSec_CAF1 18017 94 - 1
ACAACGCUCGCAGAUCGACAGCCAGUACAACUACGGAACUGUAGCUGCAGCCGCUGCUGUGGUUGGUGUAACGGCGGUAGCAGCUGCAACAGUC
.....(((.((((.(((.....).(((....))).)).)))))))((((((.((((((((.((((...)))).)))))))).))))))...... ( -34.20)
>DroSim_CAF1 15661 94 - 1
ACAACGCUCGCAGAUCGACAGCCAGUACAACUACGGAACUGUAGCUGCAGCCGCUGCUGUAGUUGGUGUAACGGCGGUAGCAGCUGCAACAGUC
.....(((.((((.(((.....).(((....))).)).)))))))((((((.((((((((.((((...)))).)))))))).))))))...... ( -32.10)
>DroEre_CAF1 18864 91 - 1
ACAACGG---CAGAUAGACAACCAGUACAACUACGGUACUGUAGCUGCAGCCGCUGCUGUAGUUGGAGUAACGGCGGUAGCAGCUGCAACUGUC
.....((---(((.........((((((.......))))))....((((((.((((((((.((((...)))).)))))))).)))))).))))) ( -36.70)
>DroYak_CAF1 19209 91 - 1
ACAACGC---CCGAUAGACAGCCAGUACAAUUACGGUACUGUAGCUGCAGCCGCUGCAGUGGUUGGAGUGACGGCGGUAGCAGCUGCAACUGUU
.......---......(((((..(((((.......)))))((((((((.(((((((((.(......).)).))))))).))))))))..))))) ( -37.30)
>consensus
ACAACGCUCGCAGAUCGACAGCCAGUACAACUACGGAACUGUAGCUGCAGCCGCUGCUGUAGUUGGAGUAACGGCGGUAGCAGCUGCAACAGUC
................(((..((.(((....)))))....((((((((.(((((((...............))))))).))))))))....))) (-29.60 = -29.44 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:02 2006