Locus 5023

Sequence ID	2L_DroMel_CAF1
Location	14,411,233 – 14,411,346
Length	113
Max. P	0.992425

overview

Window 4

Location	14,411,233 – 14,411,346
Length	113
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	97.26
Mean single sequence MFE	-28.92
Consensus MFE	-26.42
Energy contribution	-26.78
Covariance contribution	0.36
Combinations/Pair	1.07
Mean z-score	-1.96
Structure conservation index	0.91
SVM decision value	2.33
SVM RNA-class probability	0.992425
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14411233 113 + 22407834
AUUUACAUAUUUCGGCCAUAUAUUGACAGCUGCCACUGCUGCUCCACGCCUUCUUGGAGCAUUUUUGGUGAUGCUCUCAUAAAAUGCCCCCGUCCAUUGUGGAUUUUUGUCGU
(((((((.....(((.(((....(((.(((.((((..(.(((((((........))))))).)..))))...))).)))....)))...))).....)))))))......... ( -29.40)
>DroSec_CAF1 1793 113 + 1
AUUUACAUAUUUCGGCCAUAUAUUGACAGCUGCCACUGCUGCUCCACGCCUUCUUGGAGCAUUUUUGGUGAUGCUCUCAUAAAAUGCCCCCGUCCAUUGUGGAUUUUUGUCGU
(((((((.....(((.(((....(((.(((.((((..(.(((((((........))))))).)..))))...))).)))....)))...))).....)))))))......... ( -29.40)
>DroSim_CAF1 2872 113 + 1
AUUUACAUAUUUCGGCCAUAUAUUGACAGCUGCCACUGCUGCUCCACGCCUUCUUGGAGCAUUUUUGGUGAUGCUCUCAUAAAAUGCCCCCGUCCAUUGUAGAUUUUUGUCGU
(((((((.....(((.(((....(((.(((.((((..(.(((((((........))))))).)..))))...))).)))....)))...))).....)))))))......... ( -29.80)
>DroEre_CAF1 3025 113 + 1
AUUUACAUAUUUUGGCCAUAUAUUGACAGCUGCCACUGCUGCUACACGCCUUCUUGGAGCAUUUUUGGUGAUGCUCUCAUAAAAUGCGCCCGUCCAUUGUCGAAUUUUGUCGU
....(((...((((((.....((.((((((.((....)).)))...(((.....(((((((((......))))))).))......)))...))).)).))))))...)))... ( -24.90)
>DroYak_CAF1 3108 113 + 1
AUUUACAUAUUUUGGCCAUAUAUUGACAGCUGCCACUGCUGCUCCACGCCUUCUUGGAGCAUUUUUGGUGAUGCUCUCAUAAAAUGCGCCCCUCCAUUGUGGAUUUUUGUCGU
(((((((......((((((....(((.(((.((((..(.(((((((........))))))).)..))))...))).)))....))).))).......)))))))......... ( -31.12)
>consensus
AUUUACAUAUUUCGGCCAUAUAUUGACAGCUGCCACUGCUGCUCCACGCCUUCUUGGAGCAUUUUUGGUGAUGCUCUCAUAAAAUGCCCCCGUCCAUUGUGGAUUUUUGUCGU
.((((((.....(((.(((....(((.(((.((((..(.(((((((........))))))).)..))))...))).)))....)))...))).....)))))).......... (-26.42 = -26.78 +   0.36)

alignment

secondary structure

dotplot

Window 5

Location	14,411,233 – 14,411,346
Length	113
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	97.26
Mean single sequence MFE	-30.60
Consensus MFE	-25.93
Energy contribution	-26.61
Covariance contribution	0.68
Combinations/Pair	1.03
Mean z-score	-2.12
Structure conservation index	0.85
SVM decision value	1.56
SVM RNA-class probability	0.963796
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14411233 113 - 22407834
ACGACAAAAAUCCACAAUGGACGGGGGCAUUUUAUGAGAGCAUCACCAAAAAUGCUCCAAGAAGGCGUGGAGCAGCAGUGGCAGCUGUCAAUAUAUGGCCGAAAUAUGUAAAU
...(((....(((.....)))...((.(((....(((.(((....(((....(((((((........)))))))....)))..))).)))....))).))......))).... ( -31.80)
>DroSec_CAF1 1793 113 - 1
ACGACAAAAAUCCACAAUGGACGGGGGCAUUUUAUGAGAGCAUCACCAAAAAUGCUCCAAGAAGGCGUGGAGCAGCAGUGGCAGCUGUCAAUAUAUGGCCGAAAUAUGUAAAU
...(((....(((.....)))...((.(((....(((.(((....(((....(((((((........)))))))....)))..))).)))....))).))......))).... ( -31.80)
>DroSim_CAF1 2872 113 - 1
ACGACAAAAAUCUACAAUGGACGGGGGCAUUUUAUGAGAGCAUCACCAAAAAUGCUCCAAGAAGGCGUGGAGCAGCAGUGGCAGCUGUCAAUAUAUGGCCGAAAUAUGUAAAU
...(((....(((.....)))...((.(((....(((.(((....(((....(((((((........)))))))....)))..))).)))....))).))......))).... ( -29.30)
>DroEre_CAF1 3025 113 - 1
ACGACAAAAUUCGACAAUGGACGGGCGCAUUUUAUGAGAGCAUCACCAAAAAUGCUCCAAGAAGGCGUGUAGCAGCAGUGGCAGCUGUCAAUAUAUGGCCAAAAUAUGUAAAU
.(((......)))(((.((....(((((.((((.((.((((((........)))))))).))))))(((((...(((((....)))))...))))).)))....))))).... ( -27.20)
>DroYak_CAF1 3108 113 - 1
ACGACAAAAAUCCACAAUGGAGGGGCGCAUUUUAUGAGAGCAUCACCAAAAAUGCUCCAAGAAGGCGUGGAGCAGCAGUGGCAGCUGUCAAUAUAUGGCCAAAAUAUGUAAAU
...(((....(((.....)))..(((.(((....(((.(((....(((....(((((((........)))))))....)))..))).)))....))))))......))).... ( -32.90)
>consensus
ACGACAAAAAUCCACAAUGGACGGGGGCAUUUUAUGAGAGCAUCACCAAAAAUGCUCCAAGAAGGCGUGGAGCAGCAGUGGCAGCUGUCAAUAUAUGGCCGAAAUAUGUAAAU
..((((....(((((........((((((((((.(((.....)))...))))))))))........)))))((.((....)).)))))).((((((.......)))))).... (-25.93 = -26.61 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:33:45 2006