Locus 9674

Sequence ID	3R_DroMel_CAF1
Location	25,597,475 – 25,597,576
Length	101
Max. P	0.999108

overview

Window 9

Location	25,597,475 – 25,597,576
Length	101
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	91.67
Mean single sequence MFE	-23.78
Consensus MFE	-20.36
Energy contribution	-21.56
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-1.26
Structure conservation index	0.86
SVM decision value	0.10
SVM RNA-class probability	0.581629
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25597475 101 + 27905053
UCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAAGCAACAAAAUCCAACAUGUGCC-----
.((((((((((..........)).)))))))).((((((........))))))........((((....(((((............)))))....))))..----- ( -23.80)
>DroSec_CAF1 24647 101 + 1
UCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCUUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAAGCAACAAAAUCCAACAUGUGCC-----
..................(((((((((((..(....)..)))))))))))...........((((....(((((............)))))....))))..----- ( -22.50)
>DroSim_CAF1 25410 101 + 1
UCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAAGCAACAAAAUCCAACAUGUGCC-----
.((((((((((..........)).)))))))).((((((........))))))........((((....(((((............)))))....))))..----- ( -23.80)
>DroEre_CAF1 25128 96 + 1
UCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCUGAUUCAAAACC----------AACAUGUGCCCGGGC
.....(((............(((((((((..(....)..)))))))))((((((...........................----------....))))))..))) ( -22.18)
>DroYak_CAF1 25572 106 + 1
UCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAACCAACCAAAUCCAACAUGUGCCCGGGC
.....(((..........(((((((((((..(....)..)))))))))))...........((((....(((((............)))))....))))....))) ( -26.60)
>consensus
UCAUCGCCGUCAUCCAUUUCAGAGUGGCGAUGCGUGCCGCGCCACUUUGGCAUACAUAACACACAAAUCGGAUUCAAAAGCAACAAAAUCCAACAUGUGCC_____
.((((((((((..........)).)))))))).((((((........))))))........((((....(((((............)))))....))))....... (-20.36 = -21.56 +   1.20)

alignment

secondary structure

dotplot

Window 0

Location	25,597,475 – 25,597,576
Length	101
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	91.67
Mean single sequence MFE	-36.80
Consensus MFE	-32.24
Energy contribution	-33.44
Covariance contribution	1.20
Combinations/Pair	1.00
Mean z-score	-2.48
Structure conservation index	0.88
SVM decision value	3.38
SVM RNA-class probability	0.999108
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25597475 101 - 27905053
-----GGCACAUGUUGGAUUUUGUUGCUUUUGAAUCCGAUUUGUGUGUUAUGUAUGCCAAAGUGGCGCGGCACGCAUCGCCACUCUGAAAUGGAUGACGGCGAUGA
-----.(((((.(((((((((..........))))))))).)))))(((((.(((..((.(((((((..(....)..))))))).))..))).)))))........ ( -35.70)
>DroSec_CAF1 24647 101 - 1
-----GGCACAUGUUGGAUUUUGUUGCUUUUGAAUCCGAUUUGUGUGUUAUGUAUGCCAAAGUGGCGCGGCAAGCAUCGCCACUCUGAAAUGGAUGACGGCGAUGA
-----.(((((.(((((((((..........))))))))).)))))(((((.(((..((.(((((((..(....)..))))))).))..))).)))))........ ( -35.70)
>DroSim_CAF1 25410 101 - 1
-----GGCACAUGUUGGAUUUUGUUGCUUUUGAAUCCGAUUUGUGUGUUAUGUAUGCCAAAGUGGCGCGGCACGCAUCGCCACUCUGAAAUGGAUGACGGCGAUGA
-----.(((((.(((((((((..........))))))))).)))))(((((.(((..((.(((((((..(....)..))))))).))..))).)))))........ ( -35.70)
>DroEre_CAF1 25128 96 - 1
GCCCGGGCACAUGUU----------GGUUUUGAAUCAGAUUUGUGUGUUAUGUAUGCCAAAGUGGCGCGGCACGCAUCGCCACUCUGAAAUGGAUGACGGCGAUGA
(((...(((((..((----------(((.....)))))...)))))(((((.(((..((.(((((((..(....)..))))))).))..))).))))))))..... ( -33.30)
>DroYak_CAF1 25572 106 - 1
GCCCGGGCACAUGUUGGAUUUGGUUGGUUUUGAAUCCGAUUUGUGUGUUAUGUAUGCCAAAGUGGCGCGGCACGCAUCGCCACUCUGAAAUGGAUGACGGCGAUGA
(((...(((((.((((((((..(......)..)))))))).)))))(((((.(((..((.(((((((..(....)..))))))).))..))).))))))))..... ( -43.60)
>consensus
_____GGCACAUGUUGGAUUUUGUUGCUUUUGAAUCCGAUUUGUGUGUUAUGUAUGCCAAAGUGGCGCGGCACGCAUCGCCACUCUGAAAUGGAUGACGGCGAUGA
......(((((.(((((((((..........))))))))).)))))(((((.(((..((.(((((((..(....)..))))))).))..))).)))))........ (-32.24 = -33.44 +   1.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:39:37 2006