Locus 833

Sequence ID	2L_DroMel_CAF1
Location	2,383,443 – 2,383,589
Length	146
Max. P	0.605280

overview

Window 0

Location	2,383,443 – 2,383,563
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	80.67
Mean single sequence MFE	-37.20
Consensus MFE	-25.59
Energy contribution	-24.85
Covariance contribution	-0.74
Combinations/Pair	1.47
Mean z-score	-1.30
Structure conservation index	0.69
SVM decision value	0.06
SVM RNA-class probability	0.565871
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2383443 120 + 22407834
GACACCUGCCGAUGCUAUCCACGAGGAGAUUUCUCCUGGAGUUGUUUCUGAUCGGAUUACCCACCGUGAUAUUGAUUACAGUGGGGAGUGCCUAUAGCUACACAUACUCCCUGGUGGUUU
..((((.................(((((....)))))((((((((..(((...(((((.(((((.(((((....))))).))))).))).))..)))..)))...)))))..)))).... ( -36.80)
>DroGri_CAF1 2986 120 + 1
GCCAUUUACCACUGCGCUCCACACGAAGAUUUCUGCUGGAAUUCCUGCUAAUUGCCACGCCCACCGUUUGCAGCACUACAGUGGUCACUGACUAUAAUGAACUGUACUGUCUGCUAGUUG
..((.(.(((((((.(((.((.(((.((....))((.((....)).))................))).)).)))....))))))).).)).........(((((((.....))).)))). ( -22.30)
>DroSec_CAF1 1441 120 + 1
GACAACUGCCGAUGCUAUCCACGAGGAGAUUCCUCCUGGAGCUACUUCUGAUUGGUUUGCCCACCGUGAUAUUGAUUACGGUGGGGAGUGCCUAUAGCUACACAUACUCCCUGGUGGUAU
....((..(((......((((.((((.....)))).))))(((((....)...(((((.(((((((((((....))))))))))).)).)))..)))).............)))..)).. ( -43.60)
>DroSim_CAF1 2110 120 + 1
GACAACUGCCGAUGCUAUCCACGAGGAGAUUCCUCCUGGAGCUACUUUUGAUUGGUUUGCCCACCGUGAUAUUGAUUACGGUGGGGAGUGCCUAUAGCUACACAUACUCCCUGGUGGUAU
....((..(((......((((.((((.....)))).))))(((((....)...(((((.(((((((((((....))))))))))).)).)))..)))).............)))..)).. ( -43.60)
>DroEre_CAF1 2329 120 + 1
GACACCUGCCGAUGCUAUCCACGAGGAGAUUCCUUCUGGAGCUGCUUCUGAUUGGAUUACCCACCGUGAUUUUGAUCACAGUGGGGAGUGCCUAUAGCUACAUCUACUCCCUGGUGGUUU
....((..(.((.((..((((.((((.....)))).))))...)).)).)...)).....((((((((((....)))))...((((((((..............)))))))))))))... ( -40.54)
>DroYak_CAF1 2133 120 + 1
GACACCUGCCGCUGCAAUCCACGAGGAGAUUUCUCCUGGAGCUGCUUCUGAUUGGAUUACCCACCGUGAUUUUGAUCACCGUGGGGAGUGCCCAUAGCUACAUUUACUCCCUAGUCGUUU
(((..........(((.((((...((((....))))))))..)))....((((((....(((((.(((((....))))).)))))(((((..............))))).))))))))). ( -36.34)
>consensus
GACACCUGCCGAUGCUAUCCACGAGGAGAUUCCUCCUGGAGCUGCUUCUGAUUGGAUUACCCACCGUGAUAUUGAUUACAGUGGGGAGUGCCUAUAGCUACACAUACUCCCUGGUGGUUU
.....((((((......((((.((((.....)))).))))((((..((.....))....(((((.(((((....))))).))))).........)))).............))))))... (-25.59 = -24.85 +  -0.74)

alignment

secondary structure

dotplot

Window 1

Location	2,383,443 – 2,383,563
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	80.67
Mean single sequence MFE	-37.35
Consensus MFE	-24.34
Energy contribution	-25.23
Covariance contribution	0.89
Combinations/Pair	1.20
Mean z-score	-1.51
Structure conservation index	0.65
SVM decision value	0.15
SVM RNA-class probability	0.605280
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2383443 120 - 22407834
AAACCACCAGGGAGUAUGUGUAGCUAUAGGCACUCCCCACUGUAAUCAAUAUCACGGUGGGUAAUCCGAUCAGAAACAACUCCAGGAGAAAUCUCCUCGUGGAUAGCAUCGGCAGGUGUC
...((((...(((((.(((....((...((.....((((((((..........))))))))....))....))..))))))))(((((....))))).))))...(((((....))))). ( -38.20)
>DroGri_CAF1 2986 120 - 1
CAACUAGCAGACAGUACAGUUCAUUAUAGUCAGUGACCACUGUAGUGCUGCAAACGGUGGGCGUGGCAAUUAGCAGGAAUUCCAGCAGAAAUCUUCGUGUGGAGCGCAGUGGUAAAUGGC
......((((.((.(((((((((((......)))))..)))))).))))))...((.((.((.(.(((....(.((((.(((.....))).))))).))).).)).)).))......... ( -32.70)
>DroSec_CAF1 1441 120 - 1
AUACCACCAGGGAGUAUGUGUAGCUAUAGGCACUCCCCACCGUAAUCAAUAUCACGGUGGGCAAACCAAUCAGAAGUAGCUCCAGGAGGAAUCUCCUCGUGGAUAGCAUCGGCAGUUGUC
...((((...(((((..((((........))))..((((((((..........)))))))).................)))))..((((.....))))))))...((....))....... ( -37.00)
>DroSim_CAF1 2110 120 - 1
AUACCACCAGGGAGUAUGUGUAGCUAUAGGCACUCCCCACCGUAAUCAAUAUCACGGUGGGCAAACCAAUCAAAAGUAGCUCCAGGAGGAAUCUCCUCGUGGAUAGCAUCGGCAGUUGUC
...((((...(((((..((((........))))..((((((((..........)))))))).................)))))..((((.....))))))))...((....))....... ( -37.00)
>DroEre_CAF1 2329 120 - 1
AAACCACCAGGGAGUAGAUGUAGCUAUAGGCACUCCCCACUGUGAUCAAAAUCACGGUGGGUAAUCCAAUCAGAAGCAGCUCCAGAAGGAAUCUCCUCGUGGAUAGCAUCGGCAGGUGUC
...((((...(((((...(((..((((.((.....(((((((((((....)))))))))))....)).)).))..)))))))).((.((.....))))))))...(((((....))))). ( -40.60)
>DroYak_CAF1 2133 120 - 1
AAACGACUAGGGAGUAAAUGUAGCUAUGGGCACUCCCCACGGUGAUCAAAAUCACGGUGGGUAAUCCAAUCAGAAGCAGCUCCAGGAGAAAUCUCCUCGUGGAUUGCAGCGGCAGGUGUC
..............((..(((.(((.((((.....(((((.(((((....))))).)))))...)))).......((((.((((.(((.......))).))))))))))).)))..)).. ( -38.60)
>consensus
AAACCACCAGGGAGUAUAUGUAGCUAUAGGCACUCCCCACUGUAAUCAAUAUCACGGUGGGCAAUCCAAUCAGAAGCAGCUCCAGGAGAAAUCUCCUCGUGGAUAGCAUCGGCAGGUGUC
...((((...(((((.......((.....))....((((((((..........)))))))).................))))).((((....))))..))))...((....))....... (-24.34 = -25.23 +   0.89)

alignment

secondary structure

dotplot

Window 2

Location	2,383,483 – 2,383,589
Length	106
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	82.96
Mean single sequence MFE	-31.26
Consensus MFE	-19.50
Energy contribution	-19.58
Covariance contribution	0.09
Combinations/Pair	1.23
Mean z-score	-1.99
Structure conservation index	0.62
SVM decision value	-0.03
SVM RNA-class probability	0.515822
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2383483 106 + 22407834
GUUGUUUCUGAUCGGAUUACCCACCGUGAUAUUGAUUACAGUGGGGAGUGCCUAUAGCUACACAUACUCCCUGGUGGUUUCCUUAGCUGUUCUGGUCUAUAUUUAU
.........(((((((...(((((.(((((....))))).))))).(((......((((((.((.......))))))))......)))..)))))))......... ( -28.30)
>DroSec_CAF1 1481 106 + 1
GCUACUUCUGAUUGGUUUGCCCACCGUGAUAUUGAUUACGGUGGGGAGUGCCUAUAGCUACACAUACUCCCUGGUGGUAUCCUUAGCUGUUCUGGUCUAUAUUUAC
.........(((((((((.(((((((((((....))))))))))).)).))).(((((((...((((((....).)))))...)))))))...))))......... ( -33.20)
>DroSim_CAF1 2150 106 + 1
GCUACUUUUGAUUGGUUUGCCCACCGUGAUAUUGAUUACGGUGGGGAGUGCCUAUAGCUACACAUACUCCCUGGUGGUAUCCUUAGCUGUUCUGGUCUAUAUUUAC
.........(((((((((.(((((((((((....))))))))))).)).))).(((((((...((((((....).)))))...)))))))...))))......... ( -33.20)
>DroEre_CAF1 2369 106 + 1
GCUGCUUCUGAUUGGAUUACCCACCGUGAUUUUGAUCACAGUGGGGAGUGCCUAUAGCUACAUCUACUCCCUGGUGGUUUUAUUAGCUGUUCUGGUCUAUAUUUAC
.........(((..((...(((((.(((((....))))).)))))........(((((((...(((((....)))))......)))))))))..)))......... ( -30.60)
>DroYak_CAF1 2173 106 + 1
GCUGCUUCUGAUUGGAUUACCCACCGUGAUUUUGAUCACCGUGGGGAGUGCCCAUAGCUACAUUUACUCCCUAGUCGUUUUCUUAGGUGUUGUGGUCUAUAUUUAC
............((((((((.(((((((((....)))))..(((((((((..............)))))))))............))))..))))))))....... ( -28.64)
>DroAna_CAF1 2470 106 + 1
GUUCCUGUUGAUUGGAUUGCCCUCUGUGAUUUUGGUCACCGUGGGAAAUGCUUACAGCUCCACCUAUUCUUGGGUGGGCUCCAUAGCCAUCAUGGGUUAUCUAUAC
............(((((.((((...(((((....))))).((((.....(((...(((.(((((((....))))))))))....)))..)))))))).)))))... ( -33.60)
>consensus
GCUGCUUCUGAUUGGAUUACCCACCGUGAUAUUGAUCACAGUGGGGAGUGCCUAUAGCUACACAUACUCCCUGGUGGUUUCCUUAGCUGUUCUGGUCUAUAUUUAC
...................(((((.(((((....))))).))))).((.(((.(((((((....((((....)))).......)))))))...)))))........ (-19.50 = -19.58 +   0.09)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:39 2006