Locus 3633

Sequence ID	2R_DroMel_CAF1
Location	12,030,550 – 12,030,651
Length	101
Max. P	0.844533

overview

Window 3

Location	12,030,550 – 12,030,651
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	96.04
Mean single sequence MFE	-26.06
Consensus MFE	-24.02
Energy contribution	-23.82
Covariance contribution	-0.20
Combinations/Pair	1.07
Mean z-score	-1.33
Structure conservation index	0.92
SVM decision value	0.76
SVM RNA-class probability	0.844533
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12030550 101 + 20766785
ACGGUGAAGUACGAAAAUUGAAUACCGCCAUUCUGCAACGGCAUUUUGUGGCAAGGAGCAAGGAUUAUAUCGACAAAUGAAAAUCCACGACGCUCCACGAA
..((((.(((......)))...))))(((((..(((....)))....)))))..(((((..(((((...(((.....))).))))).....)))))..... ( -23.40)
>DroSec_CAF1 31854 101 + 1
ACGGUGGAGUACGAAAAUUGAAUACCGCCAUUCUGCAACGGCAUUUUGUGGCAAGGAGCAAGGAUUAUUUCGACAAAUGAAAAUCCACGACGCUCCACGAA
...(((((((.((....(((....(((((((..(((....)))....)))))..))..)))(((((..((((.....))))))))).))..)))))))... ( -27.40)
>DroSim_CAF1 31738 101 + 1
ACGGUGGAGUACGAAAAUUGAAUACCGCCAUUCUGCAACGGCAUUUUGUGGCAAGGAGCAAGGAUUAUUUCGACAAAUGAAAAUCCACGACGCUCCACGAA
...(((((((.((....(((....(((((((..(((....)))....)))))..))..)))(((((..((((.....))))))))).))..)))))))... ( -27.40)
>DroEre_CAF1 31473 101 + 1
ACGGUGAAGUAGGAAAAUUGAAUGCCGCCACUCUGCAACGGCAUUUUGUGGCAAGGAGCAAGGAUUAUUUCGAAAAAGGAAAAUCCACGACGCUCCUCGAA
..((((...(((.....)))..))))(((((..(((....)))....))))).((((((..(((((.((((......))))))))).....)))))).... ( -27.90)
>DroYak_CAF1 31636 101 + 1
ACGGUGAAGUAGGAAAAUUGAAUGCCGCCAUUCUGCAACGGCAUUUUGUGGCAAGGAGCAAGGAUUAUUUCGACAAAUGAAAAUCCACGACGCUCCUCGAA
.................((((.((((((.....(((....)))....)))))).(((((..(((((..((((.....))))))))).....))))))))). ( -24.20)
>consensus
ACGGUGAAGUACGAAAAUUGAAUACCGCCAUUCUGCAACGGCAUUUUGUGGCAAGGAGCAAGGAUUAUUUCGACAAAUGAAAAUCCACGACGCUCCACGAA
..((((.(((......)))...))))(((((..(((....)))....)))))..(((((..(((((..(((.......)))))))).....)))))..... (-24.02 = -23.82 +  -0.20)

alignment

secondary structure

dotplot

Window 4

Location	12,030,550 – 12,030,651
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	96.04
Mean single sequence MFE	-25.96
Consensus MFE	-23.54
Energy contribution	-23.30
Covariance contribution	-0.24
Combinations/Pair	1.05
Mean z-score	-1.17
Structure conservation index	0.91
SVM decision value	0.07
SVM RNA-class probability	0.570348
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12030550 101 - 20766785
UUCGUGGAGCGUCGUGGAUUUUCAUUUGUCGAUAUAAUCCUUGCUCCUUGCCACAAAAUGCCGUUGCAGAAUGGCGGUAUUCAAUUUUCGUACUUCACCGU
.....((((((....(((((.((.......))...))))).)))))).........(((((((((.......))))))))).................... ( -23.10)
>DroSec_CAF1 31854 101 - 1
UUCGUGGAGCGUCGUGGAUUUUCAUUUGUCGAAAUAAUCCUUGCUCCUUGCCACAAAAUGCCGUUGCAGAAUGGCGGUAUUCAAUUUUCGUACUCCACCGU
...((((((...((.((((((((.......)))..)))))..((.....)).....(((((((((.......))))))))).......))..))))))... ( -23.20)
>DroSim_CAF1 31738 101 - 1
UUCGUGGAGCGUCGUGGAUUUUCAUUUGUCGAAAUAAUCCUUGCUCCUUGCCACAAAAUGCCGUUGCAGAAUGGCGGUAUUCAAUUUUCGUACUCCACCGU
...((((((...((.((((((((.......)))..)))))..((.....)).....(((((((((.......))))))))).......))..))))))... ( -23.20)
>DroEre_CAF1 31473 101 - 1
UUCGAGGAGCGUCGUGGAUUUUCCUUUUUCGAAAUAAUCCUUGCUCCUUGCCACAAAAUGCCGUUGCAGAGUGGCGGCAUUCAAUUUUCCUACUUCACCGU
..(((((((((....((((((((.......)))..))))).)))))))))......((((((((..(...)..)))))))).................... ( -31.30)
>DroYak_CAF1 31636 101 - 1
UUCGAGGAGCGUCGUGGAUUUUCAUUUGUCGAAAUAAUCCUUGCUCCUUGCCACAAAAUGCCGUUGCAGAAUGGCGGCAUUCAAUUUUCCUACUUCACCGU
..(((((((((....((((((((.......)))..))))).)))))))))......(((((((((.......))))))))).................... ( -29.00)
>consensus
UUCGUGGAGCGUCGUGGAUUUUCAUUUGUCGAAAUAAUCCUUGCUCCUUGCCACAAAAUGCCGUUGCAGAAUGGCGGUAUUCAAUUUUCGUACUUCACCGU
.....((((((....(((((.((.......))...))))).)))))).........(((((((((.......))))))))).................... (-23.54 = -23.30 +  -0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:00:24 2006