Locus 7634

Sequence ID	X_DroMel_CAF1
Location	19,044,718 – 19,044,909
Length	191
Max. P	0.955497

overview

Window 9

Location	19,044,718 – 19,044,829
Length	111
Sequences	6
Columns	114
Reading direction	forward
Mean pairwise identity	81.10
Mean single sequence MFE	-35.40
Consensus MFE	-20.86
Energy contribution	-23.67
Covariance contribution	2.81
Combinations/Pair	1.15
Mean z-score	-2.06
Structure conservation index	0.59
SVM decision value	0.32
SVM RNA-class probability	0.685910
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19044718 111 + 22224390
AGAUGACA-GAUGAUUAGCCCCAA-CUUGUUACGGAUG-ACUGAAUCCCAGGUAACUUACCUGCAAAGAAUCCGUAGAAGACAAUAGCUACCACCUGUGUGGUGGUUGUGACCA
........-...............-(((.((((((((.-.((......((((((...))))))...)).)))))))))))...(((((((((((....)))))))))))..... ( -31.10)
>DroSec_CAF1 1848 111 + 1
GGAUGACA-GAUGAUUAGGCAAAA-CUGGUUACGGAUG-UCUGAAUCCCAGGUAACUUACCUGCAAAGAAUCCGUAGAAGACAAUAGCCACCACCUGUGUGGUGGUGGUGACCA
((.((...-...((((((......-))))))((((((.-(((......((((((...))))))...)))))))))......))...(((((((((.....)))))))))..)). ( -38.00)
>DroSim_CAF1 1935 111 + 1
GGAUGACA-GAUGAUUAGGCAAAA-CUGGUUACGGAUG-ACUGAAUCCCAGGUAACUUACCUGCAAAGAAUCCGUAGAAGACAAUGGCCACCACCUGUGUGGUGGUGGUGACCA
((....((-..(((((((......-)))))(((((((.-.((......((((((...))))))...)).))))))).....)).))(((((((((.....)))))))))..)). ( -37.30)
>DroEre_CAF1 5575 108 + 1
AGACGACA-GA---UUAGGCAAAA-CUGUUUGCGGAUG-ACUGAGGCCCAGGUAACUUACCUGCAAAGCAUCCGUAGAAGACAAUGGCCACCACCUGCGUGGUGGUGGUGACCA
........-..---...(((....-((.((((((((((-.((...((..(((((...)))))))..))))))))))))))......(((((((((.....)))))))))).)). ( -41.10)
>DroYak_CAF1 2001 110 + 1
AGAUGACA-GA---UUAGGCAAAAGCUGGUUACGCAUAAACUGAAUCCCAGGCAACUUACCUGCAAAGCAGCCGUAGAAGACAAUGGCCACCACCUGUGUGGUGGUGGUGACCA
........-..---...(((....)))((((((((.....(((.....)))(((.......)))...)).(((((........)))))(((((((.....))))))))))))). ( -35.30)
>DroMoj_CAF1 5147 96 + 1
GGAUGCUGGGAGCAGCAGGCACAG-CUG---------------G--CACAAACGACUUACCCGCAAAGCAGCCGUAGAAGACAAUGGCCACGGUCUGAGUGGUGGUGGUGACCA
...(((((....)))))(((((.(-(((---------------.--(((..(.((((.....((...)).(((((........)))))...)))))..))).)))).))).)). ( -29.60)
>consensus
AGAUGACA_GAUGAUUAGGCAAAA_CUGGUUACGGAUG_ACUGAAUCCCAGGUAACUUACCUGCAAAGAAUCCGUAGAAGACAAUGGCCACCACCUGUGUGGUGGUGGUGACCA
.................((..........((((((((...((......((((((...))))))...)).)))))))).........(((((((((.....)))))))))..)). (-20.86 = -23.67 +   2.81)

alignment

secondary structure

dotplot

Window 0

Location	19,044,718 – 19,044,829
Length	111
Sequences	6
Columns	114
Reading direction	reverse
Mean pairwise identity	81.10
Mean single sequence MFE	-34.48
Consensus MFE	-22.23
Energy contribution	-24.53
Covariance contribution	2.31
Combinations/Pair	1.19
Mean z-score	-2.20
Structure conservation index	0.64
SVM decision value	0.71
SVM RNA-class probability	0.828662
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19044718 111 - 22224390
UGGUCACAACCACCACACAGGUGGUAGCUAUUGUCUUCUACGGAUUCUUUGCAGGUAAGUUACCUGGGAUUCAGU-CAUCCGUAACAAG-UUGGGGCUAAUCAUC-UGUCAUCU
((((....))))....(((((((((((((.....(((.(((((((.((((.((((((...)))))).))...)).-.)))))))..)))-....)))).))))))-)))..... ( -34.20)
>DroSec_CAF1 1848 111 - 1
UGGUCACCACCACCACACAGGUGGUGGCUAUUGUCUUCUACGGAUUCUUUGCAGGUAAGUUACCUGGGAUUCAGA-CAUCCGUAACCAG-UUUUGCCUAAUCAUC-UGUCAUCC
(((((((((((........)))))))))))........((((((((((((.((((((...)))))).))...)))-.)))))))..(((-...((......)).)-))...... ( -36.20)
>DroSim_CAF1 1935 111 - 1
UGGUCACCACCACCACACAGGUGGUGGCCAUUGUCUUCUACGGAUUCUUUGCAGGUAAGUUACCUGGGAUUCAGU-CAUCCGUAACCAG-UUUUGCCUAAUCAUC-UGUCAUCC
(((((((((((........)))))))))))........(((((((.((((.((((((...)))))).))...)).-.)))))))..(((-...((......)).)-))...... ( -36.50)
>DroEre_CAF1 5575 108 - 1
UGGUCACCACCACCACGCAGGUGGUGGCCAUUGUCUUCUACGGAUGCUUUGCAGGUAAGUUACCUGGGCCUCAGU-CAUCCGCAAACAG-UUUUGCCUAA---UC-UGUCGUCU
(((((((((((........)))))))))))..((..((....)).))....((((((...))))))(((..(((.-.....(((((...-.)))))....---.)-))..))). ( -37.90)
>DroYak_CAF1 2001 110 - 1
UGGUCACCACCACCACACAGGUGGUGGCCAUUGUCUUCUACGGCUGCUUUGCAGGUAAGUUGCCUGGGAUUCAGUUUAUGCGUAACCAGCUUUUGCCUAA---UC-UGUCAUCU
(((((((((((........)))))))))))........((((((((..((.(((((.....))))).))..)))).....))))....((....))....---..-........ ( -36.30)
>DroMoj_CAF1 5147 96 - 1
UGGUCACCACCACCACUCAGACCGUGGCCAUUGUCUUCUACGGCUGCUUUGCGGGUAAGUCGUUUGUG--C---------------CAG-CUGUGCCUGCUGCUCCCAGCAUCC
(((((((...(........)...)))))))........(((((((((...((((.....))))....)--.---------------)))-)))))..(((((....)))))... ( -25.80)
>consensus
UGGUCACCACCACCACACAGGUGGUGGCCAUUGUCUUCUACGGAUGCUUUGCAGGUAAGUUACCUGGGAUUCAGU_CAUCCGUAACCAG_UUUUGCCUAAUCAUC_UGUCAUCC
(((((((((((........)))))))))))........(((((((.((((.(((((.....))))).))...))...))))))).............................. (-22.23 = -24.53 +   2.31)

alignment

secondary structure

dotplot

Window 1

Location	19,044,789 – 19,044,909
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	79.17
Mean single sequence MFE	-42.85
Consensus MFE	-20.03
Energy contribution	-20.07
Covariance contribution	0.03
Combinations/Pair	1.33
Mean z-score	-2.52
Structure conservation index	0.47
SVM decision value	0.68
SVM RNA-class probability	0.822189
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19044789 120 + 22224390
UAGAAGACAAUAGCUACCACCUGUGUGGUGGUUGUGACCACGAUCCAGGCGGAGGAGAACAGGAUCCCGCUGACCAUCAGCGAUACGCAGGCAAUGAGCGUGGCCAGGAGGAAGACCCGU
.........(((((((((((....)))))))))))........(((.(((...(((........)))(((((.....))))).(((((.........)))))))).)))((.....)).. ( -38.60)
>DroVir_CAF1 5488 120 + 1
UAGAAGACAAUAGCCACCGUUUGAGUGGUGGUGGUGACCACCACCCAGGCGGAUGAGAAAAAUAUGCCACUGAUCAUCAGCGAUAGGCAUGCAAUCAGUGUGGCUAGCAGAAAGAUGCGC
..........(((((((((((((.((((((((....)))))))).)))))))...............(((((((...((((.....)).))..)))))))))))))(((......))).. ( -46.40)
>DroGri_CAF1 6274 120 + 1
UAGAAGACAAUCGCAACGGUUUGAGUGGUGGUGGUGACAACCACCCAGGCGGAUGAGAAGAAUAUGCCGCUGAUCAUCAGCGAUAGACAUGCAAUCAGCGUGGCCAGCAGAAACAUUCGU
..........((.((.(.(((((...(((((((....).))))))))))).).)).)).((((.((((((((.....))))).....(((((.....)))))....))).....)))).. ( -37.00)
>DroWil_CAF1 1489 120 + 1
UAAAAGACAAUGGCCACCACUUGGGUGGUUGUGGUGACUAUCACCCAGGCGGAUGAGAAGAGUAUACCGCUUAUCAUGAGGCACAGGCAGGCGAUCAGUGUGGCCAUUAGAAAGACUUUU
........((((((((((.((((((((((...(....).)))))))))).)((((((..(......)..)))))).(((.((........))..)))..)))))))))............ ( -40.40)
>DroMoj_CAF1 5203 120 + 1
UAGAAGACAAUGGCCACGGUCUGAGUGGUGGUGGUGACCACGACCCAGGCGGAUGAGAAGAAGAUGCCGCUGAUCAUGAGUGAGAGGCAGGCAAUCAAGGUGGCCAGCAGAAAGAUGCGU
..........(((((((.(((((.((.(((((....))))).)).)))))............(((((((((..(((....)))..))).))).)))...)))))))(((......))).. ( -48.40)
>DroAna_CAF1 1599 120 + 1
UAGAAAACUAUAGCCACCACCUGGGUGGUGGUGGUCACCACAAUCCAGGCGGAGGAGAACAGAAUCCCGCUGGCCAUCAAUGAGACACAGGCGAUCAAGGUGGCCAGGAGGAAGACCCUC
.............((.((.(((((((.(((((....))))).))))))).)).)).........(((..(((((((((..(((...........))).)))))))))..)))........ ( -46.30)
>consensus
UAGAAGACAAUAGCCACCACCUGAGUGGUGGUGGUGACCACCACCCAGGCGGAUGAGAAGAAUAUGCCGCUGAUCAUCAGCGAUAGGCAGGCAAUCAGCGUGGCCAGCAGAAAGACCCGU
............(((((..((((.((.(((((....))))).)).))))..................(((((.....))))).................)))))................ (-20.03 = -20.07 +   0.03)

alignment

secondary structure

dotplot

Window 2

Location	19,044,789 – 19,044,909
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.17
Mean single sequence MFE	-40.47
Consensus MFE	-21.19
Energy contribution	-22.11
Covariance contribution	0.92
Combinations/Pair	1.19
Mean z-score	-2.83
Structure conservation index	0.52
SVM decision value	1.46
SVM RNA-class probability	0.955497
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 19044789 120 - 22224390
ACGGGUCUUCCUCCUGGCCACGCUCAUUGCCUGCGUAUCGCUGAUGGUCAGCGGGAUCCUGUUCUCCUCCGCCUGGAUCGUGGUCACAACCACCACACAGGUGGUAGCUAUUGUCUUCUA
(((((...((((.(((((((.((.....))..(((...)))...))))))).)))).)))))....(((((((((..(.(((((....))))).)..))))))).))............. ( -44.30)
>DroVir_CAF1 5488 120 - 1
GCGCAUCUUUCUGCUAGCCACACUGAUUGCAUGCCUAUCGCUGAUGAUCAGUGGCAUAUUUUUCUCAUCCGCCUGGGUGGUGGUCACCACCACCACUCAAACGGUGGCUAUUGUCUUCUA
..(((......)))(((((((((((((((((.((.....)))).)))))))))...............(((..(((((((((((....)))))))))))..))))))))).......... ( -44.80)
>DroGri_CAF1 6274 120 - 1
ACGAAUGUUUCUGCUGGCCACGCUGAUUGCAUGUCUAUCGCUGAUGAUCAGCGGCAUAUUCUUCUCAUCCGCCUGGGUGGUUGUCACCACCACCACUCAAACCGUUGCGAUUGUCUUCUA
..((((((..((((((..((((.((((.........)))).)).))..)))))).))))))....((..(((.((((((((.((....)).)))))))).......)))..))....... ( -30.50)
>DroWil_CAF1 1489 120 - 1
AAAAGUCUUUCUAAUGGCCACACUGAUCGCCUGCCUGUGCCUCAUGAUAAGCGGUAUACUCUUCUCAUCCGCCUGGGUGAUAGUCACCACAACCACCCAAGUGGUGGCCAUUGUCUUUUA
(((((......((((((((((...(((.....(..((((((.(.......).))))))..).....)))(((.((((((...((....))...)))))).))))))))))))).))))). ( -33.90)
>DroMoj_CAF1 5203 120 - 1
ACGCAUCUUUCUGCUGGCCACCUUGAUUGCCUGCCUCUCACUCAUGAUCAGCGGCAUCUUCUUCUCAUCCGCCUGGGUCGUGGUCACCACCACCACUCAGACCGUGGCCAUUGUCUUCUA
..(((......)))(((((((...(((.(((.((...(((....)))...))))))))..............((((((.(((((....))))).))))))...))))))).......... ( -37.60)
>DroAna_CAF1 1599 120 - 1
GAGGGUCUUCCUCCUGGCCACCUUGAUCGCCUGUGUCUCAUUGAUGGCCAGCGGGAUUCUGUUCUCCUCCGCCUGGAUUGUGGUGACCACCACCACCCAGGUGGUGGCUAUAGUUUUCUA
((((.....))))((((((((..(((.((....))..)))..).))))))).((((..((((...((.((((((((...((((((.....)))))))))))))).))..))))..)))). ( -51.70)
>consensus
ACGAAUCUUUCUGCUGGCCACACUGAUUGCCUGCCUAUCGCUGAUGAUCAGCGGCAUACUCUUCUCAUCCGCCUGGGUGGUGGUCACCACCACCACUCAAACGGUGGCUAUUGUCUUCUA
..............(((((((.............................((((..............)))).(((((.(((((....))))).)))))....))))))).......... (-21.19 = -22.11 +   0.92)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:56 2006