Locus 2271

Sequence ID	2R_DroMel_CAF1
Location	8,385,548 – 8,385,693
Length	145
Max. P	0.786744

overview

Window 7

Location	8,385,548 – 8,385,653
Length	105
Sequences	3
Columns	119
Reading direction	forward
Mean pairwise identity	80.39
Mean single sequence MFE	-33.43
Consensus MFE	-20.21
Energy contribution	-22.77
Covariance contribution	2.56
Combinations/Pair	1.07
Mean z-score	-2.02
Structure conservation index	0.60
SVM decision value	0.24
SVM RNA-class probability	0.647595
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8385548 105 + 20766785
UACAAUUUAUCAUAAUGAUGA--------CGUUAUGCAGCACUGACUG------CUGAGUUUAGUGAGUAGUCGAUGCAAGCCAACGAUAGCUAUCGAACUCAACAAAGCAAUCGAUAC
..........(((((((....--------)))))))..(((.((((((------((.(......).)))))))).))).......((((.(((..............))).)))).... ( -24.34)
>DroSec_CAF1 12482 119 + 1
UACAAUUUAUCGUGAUGAUAAUGUCUGCACGUUUUGCAGCACUGACUGCGCUGGCUGUGUUUAGUGAGCAGUCGAUGCAAAGCGUCGAUAUUUGGUGCACUCAACACAGCAACCGAUAC
.......(((((((.......((.(((((.....))))))).......)))..((((((((.((((.((.((((((((...)))))))).....)).)))).))))))))....)))). ( -39.64)
>DroSim_CAF1 12511 119 + 1
UACAAUUUAUCGUGAUGAUAAUGUCUGCACGCUUUACAGCACUGACUGCGCUGGCUGUGUUUAGUAAGCAGUCGAUGCAAAGCGUCGAUAUUUGGUGCACUCAACACAGCAACCGAUAC
.......(((((((..(((...)))..)))......((((.(.....).))))((((((((.(((..((.((((((((...)))))))).....))..))).))))))))....)))). ( -36.30)
>consensus
UACAAUUUAUCGUGAUGAUAAUGUCUGCACGUUUUGCAGCACUGACUGCGCUGGCUGUGUUUAGUGAGCAGUCGAUGCAAAGCGUCGAUAUUUGGUGCACUCAACACAGCAACCGAUAC
.......((((.........................((((.(.....).))))((((((((.(((..((.(((((((.....))))))).....))..))).))))))))....)))). (-20.21 = -22.77 +   2.56)

alignment

secondary structure

dotplot

Window 8

Location	8,385,548 – 8,385,653
Length	105
Sequences	3
Columns	119
Reading direction	reverse
Mean pairwise identity	80.39
Mean single sequence MFE	-32.73
Consensus MFE	-19.29
Energy contribution	-19.40
Covariance contribution	0.12
Combinations/Pair	1.14
Mean z-score	-2.00
Structure conservation index	0.59
SVM decision value	0.03
SVM RNA-class probability	0.547811
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8385548 105 - 20766785
GUAUCGAUUGCUUUGUUGAGUUCGAUAGCUAUCGUUGGCUUGCAUCGACUACUCACUAAACUCAG------CAGUCAGUGCUGCAUAACG--------UCAUCAUUAUGAUAAAUUGUA
((((.(((((((..(((((((((((((((((....)))))...)))))..)))))....))..))------))))).))))((((....(--------((((....)))))....)))) ( -30.20)
>DroSec_CAF1 12482 119 - 1
GUAUCGGUUGCUGUGUUGAGUGCACCAAAUAUCGACGCUUUGCAUCGACUGCUCACUAAACACAGCCAGCGCAGUCAGUGCUGCAAAACGUGCAGACAUUAUCAUCACGAUAAAUUGUA
.((((((((((((((((.((((...((....((((.((...)).)))).))..)))).))))))).))))...(..(((((((((.....))))).))))..)....)))))....... ( -35.50)
>DroSim_CAF1 12511 119 - 1
GUAUCGGUUGCUGUGUUGAGUGCACCAAAUAUCGACGCUUUGCAUCGACUGCUUACUAAACACAGCCAGCGCAGUCAGUGCUGUAAAGCGUGCAGACAUUAUCAUCACGAUAAAUUGUA
(((.((.((((((((((.((((((.......((((.((...)).)))).)))..))).))))))))((((((.....))))))..)).)))))..((((((((.....)))))..))). ( -32.50)
>consensus
GUAUCGGUUGCUGUGUUGAGUGCACCAAAUAUCGACGCUUUGCAUCGACUGCUCACUAAACACAGCCAGCGCAGUCAGUGCUGCAAAACGUGCAGACAUUAUCAUCACGAUAAAUUGUA
.(((((......(((((((............)))))))...((((.((((((..................)))))).))))..........................)))))....... (-19.29 = -19.40 +   0.12)

alignment

secondary structure

dotplot

Window 9

Location	8,385,580 – 8,385,693
Length	113
Sequences	3
Columns	119
Reading direction	forward
Mean pairwise identity	87.11
Mean single sequence MFE	-28.80
Consensus MFE	-21.43
Energy contribution	-22.43
Covariance contribution	1.01
Combinations/Pair	1.09
Mean z-score	-2.49
Structure conservation index	0.74
SVM decision value	0.57
SVM RNA-class probability	0.786744
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8385580 113 + 20766785
ACUGACUG------CUGAGUUUAGUGAGUAGUCGAUGCAAGCCAACGAUAGCUAUCGAACUCAACAAAGCAAUCGAUACUAUUGGAAUAGAAAAUAUAAGAAUUAAUUAAUUCAAACAU
..((((((------((.(......).))))))))...........((((((.((((((.((......))...))))))))))))...............(((((....)))))...... ( -21.90)
>DroSec_CAF1 12522 119 + 1
ACUGACUGCGCUGGCUGUGUUUAGUGAGCAGUCGAUGCAAAGCGUCGAUAUUUGGUGCACUCAACACAGCAACCGAUACUAUUGGAAUAGAAAAAAUAAGAAUUAAUUAAUUCAAAUAU
.(((.........((((((((.((((.((.((((((((...)))))))).....)).)))).))))))))..(((((...)))))..))).........(((((....)))))...... ( -33.60)
>DroSim_CAF1 12551 119 + 1
ACUGACUGCGCUGGCUGUGUUUAGUAAGCAGUCGAUGCAAAGCGUCGAUAUUUGGUGCACUCAACACAGCAACCGAUACUAUUGGAAUAGAAAAAAUAAGAAUUAAUUAAUUCAAAUAU
.(((.........((((((((.(((..((.((((((((...)))))))).....))..))).))))))))..(((((...)))))..))).........(((((....)))))...... ( -30.90)
>consensus
ACUGACUGCGCUGGCUGUGUUUAGUGAGCAGUCGAUGCAAAGCGUCGAUAUUUGGUGCACUCAACACAGCAACCGAUACUAUUGGAAUAGAAAAAAUAAGAAUUAAUUAAUUCAAAUAU
.(((.........((((((((.(((..((.(((((((.....))))))).....))..))).))))))))..(((((...)))))..))).........(((((....)))))...... (-21.43 = -22.43 +   1.01)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:25:18 2006