Locus 6460

Sequence ID	3L_DroMel_CAF1
Location	17,235,981 – 17,236,124
Length	143
Max. P	0.948059

overview

Window 9

Location	17,235,981 – 17,236,084
Length	103
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	82.11
Mean single sequence MFE	-29.68
Consensus MFE	-20.76
Energy contribution	-21.44
Covariance contribution	0.68
Combinations/Pair	1.08
Mean z-score	-1.60
Structure conservation index	0.70
SVM decision value	0.06
SVM RNA-class probability	0.561332
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17235981 103 + 23771897
---UCCCCAUCUUUAUUUCCACAGGCCGAGAAGUAUGCGUGUUCAGGCUGCCAUUUCCGCUGCUU--------------CUCGCCUCUCGGCUCAUGCAACAGCACUUUGGCCAAGUGUC
---................(((((((.((((((((.(((.(....((...))....)))))))))--------------)))))))...((((..(((....)))....))))..))).. ( -30.60)
>DroSec_CAF1 119996 103 + 1
---UCCCCAUCUUUAUUUCCACAGGCCGAGAAGUAUGCGUGUUCAGGCUGCCAUUUCCGCCGCUU--------------CUCGCCUCUCGGCUCGUGCAACAGCACUUUGGCCAAGUGUC
---................(((((((.(((((((..(((.(....((...))....)))).))))--------------)))))))...((((.((((....))))...))))..))).. ( -31.50)
>DroSim_CAF1 113820 103 + 1
---UCCCCAUCUUCAUUUCCACAGGCCGAGAAGUAUGCGUGUUCAGGCUGCCAUUUCCGCCGCUU--------------CUCGCCUCUCGGCUCGUGCAACAGCACUUUGGCCAAGUGUC
---................(((((((.(((((((..(((.(....((...))....)))).))))--------------)))))))...((((.((((....))))...))))..))).. ( -31.50)
>DroEre_CAF1 123386 114 + 1
------CCACUUGCAUUUCCCCUGGCCCAGAAGUAUGCGUGUUCAGGCUGCCAUUUCCGCUGCUUUUCGCUGUUUGCUUCUCGCCUCACGGCUCCUGCAACAGCACUUUGGCCAAAUGUC
------......(((((.....(((((.(((((((.(((.(....((...))....))))))))))).((((((.((.....(((....)))....)))))))).....)))))))))). ( -32.30)
>DroYak_CAF1 126340 115 + 1
CAAUCCCCAUUUCCAUUUCCAACGGCCGAGAAGUAUGCGUGUUCAGGCUGCCAUUUCCGCUGCUUUUCACUUUUCACGUCUCGCCUC-----UCAUGCAACAACACUUUGGCCAAGUGCC
.......................(((((((..((.((((((...((((.((.......))........((.......))...)))).-----.))))))...))..)))))))....... ( -22.50)
>consensus
___UCCCCAUCUUCAUUUCCACAGGCCGAGAAGUAUGCGUGUUCAGGCUGCCAUUUCCGCUGCUU______________CUCGCCUCUCGGCUCAUGCAACAGCACUUUGGCCAAGUGUC
.......................(((((((..((.((((((...((((.((.......)).)))).................(((....))).))))))...))..)))))))....... (-20.76 = -21.44 +   0.68)

alignment

secondary structure

dotplot

Window 0

Location	17,236,018 – 17,236,124
Length	106
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	85.15
Mean single sequence MFE	-44.08
Consensus MFE	-36.00
Energy contribution	-36.48
Covariance contribution	0.48
Combinations/Pair	1.08
Mean z-score	-2.15
Structure conservation index	0.82
SVM decision value	1.38
SVM RNA-class probability	0.948059
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 17236018 106 - 23771897
UGGCAAUGAGCUGCCGUGAGCCAUGGGCGUUUGGAGCAGCGACACUUGGCCAAAGUGCUGUUGCAUGAGCCGAGAGGCGAG--------------AAGCAGCGGAAAUGGCAGCCUGAAC
.........((((((((...((....((.......((((((.(((((.....))))).))))))....(((....)))...--------------..))...))..))))))))...... ( -40.80)
>DroSec_CAF1 120033 106 - 1
UGGCAAUGAGCUGCCGUGAGCCAUUGGCGUUUGGAGCAGCGACACUUGGCCAAAGUGCUGUUGCACGAGCCGAGAGGCGAG--------------AAGCGGCGGAAAUGGCAGCCUGAAC
.........((((((((...((...(.(((((...((((((.(((((.....))))).)))))).(..(((....)))..)--------------))))).)))..))))))))...... ( -43.40)
>DroSim_CAF1 113857 106 - 1
UGGCAAUGAGCUGCCGUGAGCCAUUGGCGUUUGGAGCAGCGACACUUGGCCAAAGUGCUGUUGCACGAGCCGAGAGGCGAG--------------AAGCGGCGGAAAUGGCAGCCUGAAC
.........((((((((...((...(.(((((...((((((.(((((.....))))).)))))).(..(((....)))..)--------------))))).)))..))))))))...... ( -43.40)
>DroEre_CAF1 123420 120 - 1
UGGCAAUGGGCUGCCGUGAGGCAUUGGCGCUCCGAGCAGCGACAUUUGGCCAAAGUGCUGUUGCAGGAGCCGUGAGGCGAGAAGCAAACAGCGAAAAGCAGCGGAAAUGGCAGCCUGAAC
.(((((((.(((((((.(((((....)).))))).)))))..))))..((((.....(((((((....(((....))).....((.....)).....)))))))...)))).)))..... ( -50.40)
>DroYak_CAF1 126380 115 - 1
UGGCAAUGAGCUGCCGUGAGCCAUUGGCGCUCCGAGCGGCGGCACUUGGCCAAAGUGUUGUUGCAUGA-----GAGGCGAGACGUGAAAAGUGAAAAGCAGCGGAAAUGGCAGCCUGAAC
.........((((((((...((.(((((.(((((.((((((((((((.....)))))))))))).)).-----)))))...((.......))......))).))..))))))))...... ( -42.40)
>consensus
UGGCAAUGAGCUGCCGUGAGCCAUUGGCGUUUGGAGCAGCGACACUUGGCCAAAGUGCUGUUGCACGAGCCGAGAGGCGAG______________AAGCAGCGGAAAUGGCAGCCUGAAC
.........((((((((...((....((.......(((((..(((((.....)))))..)))))....(((....)))...................))...))..))))))))...... (-36.00 = -36.48 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:43 2006