Locus 3237

Sequence ID	2L_DroMel_CAF1
Location	9,304,193 – 9,304,283
Length	90
Max. P	0.960065

overview

Window 2

Location	9,304,193 – 9,304,283
Length	90
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	90.38
Mean single sequence MFE	-22.48
Consensus MFE	-17.70
Energy contribution	-18.78
Covariance contribution	1.08
Combinations/Pair	1.04
Mean z-score	-2.25
Structure conservation index	0.79
SVM decision value	1.51
SVM RNA-class probability	0.960065
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9304193 90 + 22407834
AAAAAUAAAAAUGAAUGGCCAACGAACAUGACCAGAGGCGGUGCGUUUAAAAUAAUUGUUAGCAAAGGGGCUCUGUUG------GCCACAAA----AAAU
...............(((((((((........)((((.(..(((...(((.....)))...)))....).))))))))------))))....----.... ( -20.40)
>DroSec_CAF1 133667 93 + 1
A------AAAAUGAAUGGCCAACGAACAUGACCAGAGGCGGUGCGUUUAAAAUAAUUGUUAGCAAAGGGGCUCUGUUGGCGGUGGCCACAAAAA-AAAAU
.------........((((((.((....((((.((((.(..(((...(((.....)))...)))....).)))))))).)).))))))......-..... ( -22.80)
>DroSim_CAF1 136757 100 + 1
AAAAAUAAAAAUGAAUGGCCAACGAACAUGACCAGAGGCGGUGCGUUUAAAAUAAUUGUUAGCAAAGGGGCUCUGUUGGCGGUGGCCACAAAAAAAAAAU
...............((((((.((....((((.((((.(..(((...(((.....)))...)))....).)))))))).)).))))))............ ( -22.80)
>DroEre_CAF1 144139 97 + 1
AAAAAUAAAAAUGAAUGGCCAACGAACAUGACCAGAGGCGGUACGUUUAAAAUAAUUGUUAGCAAAGGGGCUCUGUUGGCGGUGGCCACGAA---AAAAU
...............(((((...((((...(((......)))..))))......((((((((((.((...)).)))))))))))))))....---..... ( -21.80)
>DroYak_CAF1 142117 96 + 1
AAAAAUAAAAAUGAAUGGCC-ACGAAUAUGACCAGAGGCAGUGCGUUUAAAAUAAUUGUUGGCAAAGGGGCUCUGUUGGUGGUGGCCACAAA---AAAAU
...............(((((-((.(...((((.((((.(..(((...(((.....)))...)))....).)))))))).).)))))))....---..... ( -24.60)
>consensus
AAAAAUAAAAAUGAAUGGCCAACGAACAUGACCAGAGGCGGUGCGUUUAAAAUAAUUGUUAGCAAAGGGGCUCUGUUGGCGGUGGCCACAAA___AAAAU
...............((((((.((....((((.((((.(..(((...(((.....)))...)))....).)))))))).)).))))))............ (-17.70 = -18.78 +   1.08)

alignment

secondary structure

dotplot

Window 3

Location	9,304,193 – 9,304,283
Length	90
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	90.38
Mean single sequence MFE	-18.76
Consensus MFE	-13.23
Energy contribution	-14.31
Covariance contribution	1.08
Combinations/Pair	1.06
Mean z-score	-2.05
Structure conservation index	0.71
SVM decision value	0.11
SVM RNA-class probability	0.587510
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 9304193 90 - 22407834
AUUU----UUUGUGGC------CAACAGAGCCCCUUUGCUAACAAUUAUUUUAAACGCACCGCCUCUGGUCAUGUUCGUUGGCCAUUCAUUUUUAUUUUU
....----...(((((------((((.((((....(((....)))...........(.((((....)))))..))))))))))))).............. ( -19.70)
>DroSec_CAF1 133667 93 - 1
AUUUU-UUUUUGUGGCCACCGCCAACAGAGCCCCUUUGCUAACAAUUAUUUUAAACGCACCGCCUCUGGUCAUGUUCGUUGGCCAUUCAUUUU------U
.....-.....(((((((.((..((((.(((......)))................(.((((....))))).)))))).))))))).......------. ( -18.20)
>DroSim_CAF1 136757 100 - 1
AUUUUUUUUUUGUGGCCACCGCCAACAGAGCCCCUUUGCUAACAAUUAUUUUAAACGCACCGCCUCUGGUCAUGUUCGUUGGCCAUUCAUUUUUAUUUUU
...........(((((((.((..((((.(((......)))................(.((((....))))).)))))).))))))).............. ( -18.20)
>DroEre_CAF1 144139 97 - 1
AUUUU---UUCGUGGCCACCGCCAACAGAGCCCCUUUGCUAACAAUUAUUUUAAACGUACCGCCUCUGGUCAUGUUCGUUGGCCAUUCAUUUUUAUUUUU
.....---...(((((((.((.......(((......))).............(((((((((....)))).))))))).))))))).............. ( -19.00)
>DroYak_CAF1 142117 96 - 1
AUUUU---UUUGUGGCCACCACCAACAGAGCCCCUUUGCCAACAAUUAUUUUAAACGCACUGCCUCUGGUCAUAUUCGU-GGCCAUUCAUUUUUAUUUUU
.....---...((((((((......(((((...(..(((.................)))..).))))).........))-)))))).............. ( -18.69)
>consensus
AUUUU___UUUGUGGCCACCGCCAACAGAGCCCCUUUGCUAACAAUUAUUUUAAACGCACCGCCUCUGGUCAUGUUCGUUGGCCAUUCAUUUUUAUUUUU
...........(((((((..((.((((..(((.....((......................))....)))..)))).))))))))).............. (-13.23 = -14.31 +   1.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:41 2006