Locus 6076

Sequence ID	X_DroMel_CAF1
Location	15,605,124 – 15,605,244
Length	120
Max. P	0.928275

overview

Window 3

Location	15,605,124 – 15,605,244
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	94.08
Mean single sequence MFE	-32.04
Consensus MFE	-28.34
Energy contribution	-29.06
Covariance contribution	0.72
Combinations/Pair	1.04
Mean z-score	-1.52
Structure conservation index	0.88
SVM decision value	1.17
SVM RNA-class probability	0.925637
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15605124 120 + 22224390
ACUUGGGCUACUGUCUGCUACUGCAAACCCACCAGCUGCAUAUAGAGUCGCACAUCGCACUAUUCAAUAACCGCGAGCCGUGGAUAACUGCGGCCCUGCUCAUUUCAGAGCAAUAUCUAU
...((((((.((((.(((..(((.........)))..))).)))))))).))..((((..............))))((((..(....)..))))..(((((......)))))........ ( -32.94)
>DroSec_CAF1 3201 120 + 1
AUUUGGGCUACUGCCUGCUACUGCAAACCCACCAGCUGCAUAUAGAGUCGCACAUCGCACUAUUCAAUAACCGCGAGCCGUGGAUAACUGCGGCCCUGCUCAUUUCGGAGCAAUAUCUAU
...((((((.(((..(((..(((.........)))..)))..))))))).))..((((..............))))((((..(....)..))))..(((((......)))))........ ( -30.94)
>DroSim_CAF1 3165 120 + 1
AUUUGGGCUACUGCCUGCUACUGCAAACCCACCAGCUGCAUAUAGAGUCGCACAUCGCACUAUUCAAUAACCGCGAGCCGUGGAUAACGGCGGCCCUGCUCAUUUCAGAGCAAUAUCUAU
....(((((...((((((....)))...((((..(((((.(((.((((.((.....))...)))).)))...)).))).)))).....))))))))(((((......)))))........ ( -34.20)
>DroEre_CAF1 3205 120 + 1
ACUUGGGCUACUGCCUGCUAUUGCAAACCCACCAGCUGCACAUCGAGUCGCACAUCGCUCUAUUCAAUAACCGCGAGCCGUGGAUAACAGCGGCCCUGCUCAUUUCAGAGCAAUAUCUAU
....((((..(((..(((....)))...((((..(((((((.....)).)))..((((..............)))))).))))....)))..))))(((((......)))))........ ( -34.44)
>DroYak_CAF1 3217 120 + 1
ACUUGGGCUACUGCCUGCUAUUGCAAACCCACCAGCUUCACAUUGAGUCGCACAUCGCUCUAUUCAAUAACCGCGAGCCGUGGAUAACAGCCGCACUGCUCAUCUCAGAGCACUACCUAU
...((((((......(((....)))...((((..((((...(((((((.((.....))...)))))))......)))).)))).....)))).)).(((((......)))))........ ( -27.70)
>consensus
ACUUGGGCUACUGCCUGCUACUGCAAACCCACCAGCUGCAUAUAGAGUCGCACAUCGCACUAUUCAAUAACCGCGAGCCGUGGAUAACAGCGGCCCUGCUCAUUUCAGAGCAAUAUCUAU
....((((..(((..(((....)))...((((..((.((.......)).))...((((..............))))...))))....)))..))))(((((......)))))........ (-28.34 = -29.06 +   0.72)

alignment

secondary structure

dotplot

Window 4

Location	15,605,124 – 15,605,244
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	94.08
Mean single sequence MFE	-41.28
Consensus MFE	-36.06
Energy contribution	-36.30
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-1.57
Structure conservation index	0.87
SVM decision value	1.19
SVM RNA-class probability	0.928275
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15605124 120 - 22224390
AUAGAUAUUGCUCUGAAAUGAGCAGGGCCGCAGUUAUCCACGGCUCGCGGUUAUUGAAUAGUGCGAUGUGCGACUCUAUAUGCAGCUGGUGGGUUUGCAGUAGCAGACAGUAGCCCAAGU
........(((((......)))))((((..(......((((((((((((.(........).)))))..((((........))))))).))))((((((....)))))).)..)))).... ( -41.30)
>DroSec_CAF1 3201 120 - 1
AUAGAUAUUGCUCCGAAAUGAGCAGGGCCGCAGUUAUCCACGGCUCGCGGUUAUUGAAUAGUGCGAUGUGCGACUCUAUAUGCAGCUGGUGGGUUUGCAGUAGCAGGCAGUAGCCCAAAU
........(((((......)))))((((..(......((((((((((((.(........).)))))..((((........))))))).))))((((((....)))))).)..)))).... ( -39.60)
>DroSim_CAF1 3165 120 - 1
AUAGAUAUUGCUCUGAAAUGAGCAGGGCCGCCGUUAUCCACGGCUCGCGGUUAUUGAAUAGUGCGAUGUGCGACUCUAUAUGCAGCUGGUGGGUUUGCAGUAGCAGGCAGUAGCCCAAAU
........(((((......)))))((((..(......((((((((((((.(........).)))))..((((........))))))).))))((((((....)))))).)..)))).... ( -39.90)
>DroEre_CAF1 3205 120 - 1
AUAGAUAUUGCUCUGAAAUGAGCAGGGCCGCUGUUAUCCACGGCUCGCGGUUAUUGAAUAGAGCGAUGUGCGACUCGAUGUGCAGCUGGUGGGUUUGCAAUAGCAGGCAGUAGCCCAAGU
........(((((......)))))((((..((((((((((((((((((.(((....)))...))))((..((......))..))))).)))))).(((....))))))))..)))).... ( -44.00)
>DroYak_CAF1 3217 120 - 1
AUAGGUAGUGCUCUGAGAUGAGCAGUGCGGCUGUUAUCCACGGCUCGCGGUUAUUGAAUAGAGCGAUGUGCGACUCAAUGUGAAGCUGGUGGGUUUGCAAUAGCAGGCAGUAGCCCAAGU
....(((.(((((......))))).)))(((((....(((((((((((((((....))).(((((.....)).)))..)))).)))).))))((((((....))))))..)))))..... ( -41.60)
>consensus
AUAGAUAUUGCUCUGAAAUGAGCAGGGCCGCAGUUAUCCACGGCUCGCGGUUAUUGAAUAGUGCGAUGUGCGACUCUAUAUGCAGCUGGUGGGUUUGCAGUAGCAGGCAGUAGCCCAAGU
........(((((......)))))((((..(......(((((((((((.(((....)))...))))..((((........))))))).))))((((((....)))))).)..)))).... (-36.06 = -36.30 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:26 2006