Locus 5065

Sequence ID	2L_DroMel_CAF1
Location	14,498,005 – 14,498,099
Length	94
Max. P	0.999932

overview

Window 7

Location	14,498,005 – 14,498,099
Length	94
Sequences	5
Columns	103
Reading direction	forward
Mean pairwise identity	92.83
Mean single sequence MFE	-21.54
Consensus MFE	-18.94
Energy contribution	-19.14
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.73
Structure conservation index	0.88
SVM decision value	3.88
SVM RNA-class probability	0.999682
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14498005 94 + 22407834
UAUUAUCUUACAUUAUAUGGGCGGUUGCCUGGGAUCGCCCAUCUUGUUCAUUUAGCAUC--------UCAGUCUUU-UUUUCAGAUUUUGUGUAAAAUGUUUU
.........(((....((((((((((......))))))))))..))).(((((.((((.--------..(((((..-.....)))))..)))).))))).... ( -22.10)
>DroSec_CAF1 29727 94 + 1
UAUUAUCUUACAUUAUAUGGGCGGUUGCCUGGGAUCGCCCAUCUUGUUCAUUUAGCAUC--------UCUGUCUUU-UUUUCAGAUUUUGUGUAAAAUGUUUU
.........(((....((((((((((......))))))))))..))).(((((.((((.--------((((.....-....))))....)))).))))).... ( -22.10)
>DroSim_CAF1 13761 95 + 1
UAUUAUCUUACAUUAUAUGGGCGGUUGCCUGGGAUCGCCCAUCUUGUUCAUUUAGCAUC--------UUAGUCUUUUUUUUCAGAUUUUGUGUAAAAUGUUUU
.........(((....((((((((((......))))))))))..))).(((((.((((.--------..(((((........)))))..)))).))))).... ( -23.10)
>DroEre_CAF1 23748 102 + 1
UAUUAUCUUACAUUAUAUGGGCGGUUGCCUGUGAUCGCCCAUCUUGUUCAUUUACCAUCCCAGUCUUUCAGUCUUC-UUUUCAGAUUUUGUGUAAAAUGUUUU
.........(((....(((((((((((....)))))))))))..))).(((((..(((...(((((...((....)-)....)))))..)))..))))).... ( -20.20)
>DroYak_CAF1 18979 94 + 1
UAUUAUCUUACAUUAUAUGGGCGGUUGGCUGUGAUCGCCCAUCUUGUUCAUUUACCAUC--------UCAGUCUUC-UUUCCAGAUUUUGUGUAAAAUGUUUU
.........(((....((((((((((......))))))))))..))).(((((..(((.--------..(((((..-.....)))))..)))..))))).... ( -20.20)
>consensus
UAUUAUCUUACAUUAUAUGGGCGGUUGCCUGGGAUCGCCCAUCUUGUUCAUUUAGCAUC________UCAGUCUUU_UUUUCAGAUUUUGUGUAAAAUGUUUU
...(((.((((((...((((((((((......))))))))))...........................(((((........)))))..)))))).))).... (-18.94 = -19.14 +   0.20)

alignment

secondary structure

dotplot

Window 8

Location	14,498,005 – 14,498,099
Length	94
Sequences	5
Columns	103
Reading direction	reverse
Mean pairwise identity	92.83
Mean single sequence MFE	-18.37
Consensus MFE	-17.30
Energy contribution	-17.30
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.57
Structure conservation index	0.94
SVM decision value	4.64
SVM RNA-class probability	0.999932
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14498005 94 - 22407834
AAAACAUUUUACACAAAAUCUGAAAA-AAAGACUGA--------GAUGCUAAAUGAACAAGAUGGGCGAUCCCAGGCAACCGCCCAUAUAAUGUAAGAUAAUA
.....((((((((....((((.(...-......).)--------)))..............(((((((......(....))))))))....)))))))).... ( -17.40)
>DroSec_CAF1 29727 94 - 1
AAAACAUUUUACACAAAAUCUGAAAA-AAAGACAGA--------GAUGCUAAAUGAACAAGAUGGGCGAUCCCAGGCAACCGCCCAUAUAAUGUAAGAUAAUA
.....((((((((.....((((....-.....))))--------.................(((((((......(....))))))))....)))))))).... ( -18.70)
>DroSim_CAF1 13761 95 - 1
AAAACAUUUUACACAAAAUCUGAAAAAAAAGACUAA--------GAUGCUAAAUGAACAAGAUGGGCGAUCCCAGGCAACCGCCCAUAUAAUGUAAGAUAAUA
.....((((((((....((((..............)--------)))..............(((((((......(....))))))))....)))))))).... ( -17.44)
>DroEre_CAF1 23748 102 - 1
AAAACAUUUUACACAAAAUCUGAAAA-GAAGACUGAAAGACUGGGAUGGUAAAUGAACAAGAUGGGCGAUCACAGGCAACCGCCCAUAUAAUGUAAGAUAAUA
.....((((((((.....(((....)-))................................(((((((......(....))))))))....)))))))).... ( -19.20)
>DroYak_CAF1 18979 94 - 1
AAAACAUUUUACACAAAAUCUGGAAA-GAAGACUGA--------GAUGGUAAAUGAACAAGAUGGGCGAUCACAGCCAACCGCCCAUAUAAUGUAAGAUAAUA
.....((((((((.....(((....)-)).......--------.................(((((((............)))))))....)))))))).... ( -19.10)
>consensus
AAAACAUUUUACACAAAAUCUGAAAA_AAAGACUGA________GAUGCUAAAUGAACAAGAUGGGCGAUCCCAGGCAACCGCCCAUAUAAUGUAAGAUAAUA
.....((((((((.....(((........))).............................(((((((............)))))))....)))))))).... (-17.30 = -17.30 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:01 2006