Locus 7083

Sequence ID	3R_DroMel_CAF1
Location	18,688,800 – 18,688,900
Length	100
Max. P	0.999926

overview

Window 9

Location	18,688,800 – 18,688,900
Length	100
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	90.93
Mean single sequence MFE	-30.28
Consensus MFE	-24.90
Energy contribution	-25.94
Covariance contribution	1.04
Combinations/Pair	1.04
Mean z-score	-2.42
Structure conservation index	0.82
SVM decision value	2.34
SVM RNA-class probability	0.992637
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18688800 100 + 27905053
AAAUAUCUGCAAGGUGGCAAGCGAACCGCAAAGCAGCAGGAGACAAAGGACAUGGGGAUUUAU--AUGCUGGCUGCGGAAUUAUUGCACCUUGGAAUAUUUU
((((((.(.(((((((.(((.....(((((...((((((....).(((..(....)..)))..--.)))))..))))).....)))))))))).))))))). ( -30.70)
>DroSec_CAF1 118656 100 + 1
AAAUAUCUGCAAGGCGGCAAGCGAACCGCAAACCAGCAGGAGACAAAGGACAUGGGGAUUUAU--AUGCUGGCUGCGGAAUUAUUGCACCUUGGAAUAUUUU
((((((.(.(((((..((((.....(((((..(((((((....).(((..(....)..)))..--.)))))).))))).....)))).))))).))))))). ( -31.80)
>DroSim_CAF1 117669 100 + 1
AAAUAUCUGCAAGGCGGCAAGCGAACCGCAAACCAGCAGGAGACAAAGGACAUGGGGAUUUAU--AUGCUGGCUGCGGAAUUAUUGCACCUUGGAAUAUUUU
((((((.(.(((((..((((.....(((((..(((((((....).(((..(....)..)))..--.)))))).))))).....)))).))))).))))))). ( -31.80)
>DroEre_CAF1 121905 95 + 1
AAAUAUCUGCAAGGUGGCAAGCGAACCGCAAGCCAGCAGGAGACAAAGGACAUGGCGAUUUAUUUGUGCUGGAUGCGGAAAUAUUGCACGUUGGA-------
.........(((.(((.(((.....(((((..(((((.(....)..........((((.....))))))))).))))).....)))))).)))..------- ( -30.10)
>DroYak_CAF1 119895 102 + 1
AAAUAUCUGCAAGGUGGCAAGCGAACCGCAAACCAGCAGGAGACAAAGGACAUGGGGAUUUAUUUGUGUUGGGUGCGGAAAUAUUGCACAUUGGCAUAUUUU
.......(((...(((((((.....(((((..((((((.(((...(((..(....)..))).))).)))))).))))).....)))).)))..)))...... ( -27.00)
>consensus
AAAUAUCUGCAAGGUGGCAAGCGAACCGCAAACCAGCAGGAGACAAAGGACAUGGGGAUUUAU__AUGCUGGCUGCGGAAUUAUUGCACCUUGGAAUAUUUU
.........(((((((.(((.....(((((..(((((((....).(((..(....)..))).....)))))).))))).....))))))))))......... (-24.90 = -25.94 +   1.04)

alignment

secondary structure

dotplot

Window 0

Location	18,688,800 – 18,688,900
Length	100
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	90.93
Mean single sequence MFE	-26.74
Consensus MFE	-24.44
Energy contribution	-25.40
Covariance contribution	0.96
Combinations/Pair	1.04
Mean z-score	-2.90
Structure conservation index	0.91
SVM decision value	4.60
SVM RNA-class probability	0.999926
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18688800 100 - 27905053
AAAAUAUUCCAAGGUGCAAUAAUUCCGCAGCCAGCAU--AUAAAUCCCCAUGUCCUUUGUCUCCUGCUGCUUUGCGGUUCGCUUGCCACCUUGCAGAUAUUU
.(((((((.((((((((((.....((((((.(((((.--(((((...........)))))....)))))..)))))).....))).)))))))..))))))) ( -27.90)
>DroSec_CAF1 118656 100 - 1
AAAAUAUUCCAAGGUGCAAUAAUUCCGCAGCCAGCAU--AUAAAUCCCCAUGUCCUUUGUCUCCUGCUGGUUUGCGGUUCGCUUGCCGCCUUGCAGAUAUUU
.(((((((.((((((((((.....((((((((((((.--(((((...........)))))....)))))).)))))).....))).)))))))..))))))) ( -32.50)
>DroSim_CAF1 117669 100 - 1
AAAAUAUUCCAAGGUGCAAUAAUUCCGCAGCCAGCAU--AUAAAUCCCCAUGUCCUUUGUCUCCUGCUGGUUUGCGGUUCGCUUGCCGCCUUGCAGAUAUUU
.(((((((.((((((((((.....((((((((((((.--(((((...........)))))....)))))).)))))).....))).)))))))..))))))) ( -32.50)
>DroEre_CAF1 121905 95 - 1
-------UCCAACGUGCAAUAUUUCCGCAUCCAGCACAAAUAAAUCGCCAUGUCCUUUGUCUCCUGCUGGCUUGCGGUUCGCUUGCCACCUUGCAGAUAUUU
-------..(((.((((((.....(((((.((((((...(((((..((...))..)))))....))))))..))))).....))).))).)))......... ( -23.50)
>DroYak_CAF1 119895 102 - 1
AAAAUAUGCCAAUGUGCAAUAUUUCCGCACCCAACACAAAUAAAUCCCCAUGUCCUUUGUCUCCUGCUGGUUUGCGGUUCGCUUGCCACCUUGCAGAUAUUU
.((((((......((((.........)))).................................((((((((..(((...)))..))))....)))))))))) ( -17.30)
>consensus
AAAAUAUUCCAAGGUGCAAUAAUUCCGCAGCCAGCAU__AUAAAUCCCCAUGUCCUUUGUCUCCUGCUGGUUUGCGGUUCGCUUGCCACCUUGCAGAUAUUU
.........((((((((((.....((((((((((((...(((((...........)))))....)))))).)))))).....))).)))))))......... (-24.44 = -25.40 +   0.96)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:36:59 2006