Locus 2395

Sequence ID	2L_DroMel_CAF1
Location	6,523,538 – 6,523,630
Length	92
Max. P	0.970540

overview

Window 5

Location	6,523,538 – 6,523,630
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	95.73
Mean single sequence MFE	-19.70
Consensus MFE	-18.10
Energy contribution	-18.54
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.25
Structure conservation index	0.92
SVM decision value	0.51
SVM RNA-class probability	0.764299
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6523538 92 + 22407834
UUGAGAAUUCCUCGACAGGCCAUUUGGAUCAACGAUUUUGGUUUAUGCAAAAAACUUUAUGCACAUUUAUAGCCACAAGUGCCUCUUUUUUG
(((((.....))))).((((.(((((((((...)))).(((((..((((.((....)).)))).......))))))))))))))........ ( -16.00)
>DroSec_CAF1 10617 91 + 1
UUGAGAAUUCCUCGACAGGCCAUUUGGAUCAACGAUUUUGGUUUAUGCAAA-AACAUUAUGCAUAUUUAUAGCCACAAGUGGCUCUUUUUUU
(((((.....)))))..(((((((((((((...)))).(((((((((((..-.......)))))).....))))))))))))))........ ( -22.80)
>DroSim_CAF1 10522 91 + 1
UUGAGAAUUCCUCGACAGGCCAUUUGGAUCAACGAUUUUGGUUUAUGCAAA-AACAUUAUGCAUAUUUAUAGCCACAAGUGGCUCUUUUUUG
(((((.....)))))..(((((((((((((...)))).(((((((((((..-.......)))))).....))))))))))))))........ ( -22.80)
>DroEre_CAF1 8079 91 + 1
UUGAGAAUUCCUCGACAGGCCAUUUGGAUCAACAAUUUUGGUUUAUGCGAA-AACACUAUGCAUAUUUAUAGCCGCAAGUGGCUCUUUUUUG
(((((.....)))))..(((((((((((((((.....))))))((((((..-.......))))))..........)))))))))........ ( -20.60)
>DroYak_CAF1 9762 91 + 1
UUGAGAAUUCCUCGACAGGCCAUUUGGAUCAACGAUUUUGGUUUAUGCAAA-AACAUUAUGCAUAUUUAUAGCCACAAGUGUCUCUUUUUUG
(((((.....))))).((((.(((((((((...)))).(((((((((((..-.......)))))).....))))))))))))))........ ( -16.30)
>consensus
UUGAGAAUUCCUCGACAGGCCAUUUGGAUCAACGAUUUUGGUUUAUGCAAA_AACAUUAUGCAUAUUUAUAGCCACAAGUGGCUCUUUUUUG
(((((.....)))))..(((((((((((((((.....))))))((((((..........))))))..........)))))))))........ (-18.10 = -18.54 +   0.44)

alignment

secondary structure

dotplot

Window 6

Location	6,523,538 – 6,523,630
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	95.73
Mean single sequence MFE	-19.08
Consensus MFE	-17.84
Energy contribution	-17.88
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-1.54
Structure conservation index	0.94
SVM decision value	1.66
SVM RNA-class probability	0.970540
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6523538 92 - 22407834
CAAAAAAGAGGCACUUGUGGCUAUAAAUGUGCAUAAAGUUUUUUGCAUAAACCAAAAUCGUUGAUCCAAAUGGCCUGUCGAGGAAUUCUCAA
.......((((..((((.((((((...((((((..........))))))...(((.....)))......))))))...))))....)))).. ( -19.90)
>DroSec_CAF1 10617 91 - 1
AAAAAAAGAGCCACUUGUGGCUAUAAAUAUGCAUAAUGUU-UUUGCAUAAACCAAAAUCGUUGAUCCAAAUGGCCUGUCGAGGAAUUCUCAA
........(((((....))))).....((((((.......-..))))))........((.(((((((....))...))))).))........ ( -19.00)
>DroSim_CAF1 10522 91 - 1
CAAAAAAGAGCCACUUGUGGCUAUAAAUAUGCAUAAUGUU-UUUGCAUAAACCAAAAUCGUUGAUCCAAAUGGCCUGUCGAGGAAUUCUCAA
........(((((....))))).....((((((.......-..))))))........((.(((((((....))...))))).))........ ( -19.00)
>DroEre_CAF1 8079 91 - 1
CAAAAAAGAGCCACUUGCGGCUAUAAAUAUGCAUAGUGUU-UUCGCAUAAACCAAAAUUGUUGAUCCAAAUGGCCUGUCGAGGAAUUCUCAA
.......(((...(((((((((((...(((((........-...)))))........(((......))))))))).).)))).....))).. ( -16.60)
>DroYak_CAF1 9762 91 - 1
CAAAAAAGAGACACUUGUGGCUAUAAAUAUGCAUAAUGUU-UUUGCAUAAACCAAAAUCGUUGAUCCAAAUGGCCUGUCGAGGAAUUCUCAA
.......((((..((((.((((((...((((((.......-..))))))...(((.....)))......))))))...))))....)))).. ( -20.90)
>consensus
CAAAAAAGAGCCACUUGUGGCUAUAAAUAUGCAUAAUGUU_UUUGCAUAAACCAAAAUCGUUGAUCCAAAUGGCCUGUCGAGGAAUUCUCAA
.......(((...((((.((((((...((((((..........))))))...(((.....)))......))))))...)))).....))).. (-17.84 = -17.88 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:00 2006