Locus 6287

Sequence ID	X_DroMel_CAF1
Location	15,953,523 – 15,953,870
Length	347
Max. P	0.999161

overview

Window 3

Location	15,953,523 – 15,953,630
Length	107
Sequences	3
Columns	107
Reading direction	forward
Mean pairwise identity	98.13
Mean single sequence MFE	-40.86
Consensus MFE	-40.83
Energy contribution	-40.83
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.86
Structure conservation index	1.00
SVM decision value	0.86
SVM RNA-class probability	0.869766
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953523 107 + 22224390
CAGCACCGCCUGCCGAUGAGCCCACCAUCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUU
.......((((((.((((......(((((((...)))))))...(((((((((..((((.................))))..)))))))))...))))))))))... ( -40.83)
>DroSec_CAF1 21879 107 + 1
CAGCGCCGCCUGCCGAUGAGCCUACCAUCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUC
.......((((((.((((...((.(((((((...))))))).))(((((((((..((((.................))))..)))))))))...))))))))))... ( -40.93)
>DroSim_CAF1 16400 107 + 1
CAGCGCCGCCUGCCGAUGAGCCCACCAUCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUC
.......((((((.((((......(((((((...)))))))...(((((((((..((((.................))))..)))))))))...))))))))))... ( -40.83)
>consensus
CAGCGCCGCCUGCCGAUGAGCCCACCAUCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUC
.......((((((.((((......(((((((...)))))))...(((((((((..((((.................))))..)))))))))...))))))))))... (-40.83 = -40.83 +  -0.00)

alignment

secondary structure

dotplot

Window 4

Location	15,953,550 – 15,953,670
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-46.39
Consensus MFE	-43.47
Energy contribution	-44.81
Covariance contribution	1.34
Combinations/Pair	1.03
Mean z-score	-2.43
Structure conservation index	0.94
SVM decision value	3.41
SVM RNA-class probability	0.999161
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953550 120 + 22224390
UCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUUACGGGUGCAUGGAGUAAACCAUGAUCAUCGCUGGUCGACA
(((((.((((((((...(((((((((..((((.................))))..)))))))))((((((((....))..)))))).(((((......))))).)))))))))).))).. ( -44.83)
>DroSec_CAF1 21906 120 + 1
UCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUCACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACA
..(((..(..(((((..(((((((((..((((.................))))..))))))))).)))))..).))).((((.((((((((((....)))))).....)))).)).)).. ( -48.83)
>DroSim_CAF1 16427 120 + 1
UCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUCACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACA
..(((..(..(((((..(((((((((..((((.................))))..))))))))).)))))..).))).((((.((((((((((....)))))).....)))).)).)).. ( -48.83)
>DroEre_CAF1 20529 120 + 1
UCGCCGAGUGAUGGAAGCCGCUCUUGUUAUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUCACGGGUGCAUGGAGUAGUCCAUGAUCGUCGCUGGUCGACA
..(((..(..(((((..(((((((((..............(((.((....)))))))))))))).)))))..).)))......(((.((((((....)))))))))((((.....)))). ( -44.33)
>DroYak_CAF1 3972 120 + 1
UCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCGGUUGCGGGCAUCACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACA
..(((..(..((.((..(((((((((..((((.................))))..))))))))).)).))..).))).((((.((((((((((....)))))).....)))).)).)).. ( -45.13)
>consensus
UCGCCGAGUGAUGGAAGCCGCUCUUGUUGUUAUUCAAAUUGAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUCACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACA
..(((..(..(((((..(((((((((..((((.................))))..))))))))).)))))..).))).((((.((((((((((....)))))).....)))).)).)).. (-43.47 = -44.81 +   1.34)

alignment

secondary structure

dotplot

Window 5

Location	15,953,590 – 15,953,710
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.33
Mean single sequence MFE	-43.36
Consensus MFE	-39.18
Energy contribution	-40.16
Covariance contribution	0.98
Combinations/Pair	1.06
Mean z-score	-1.62
Structure conservation index	0.90
SVM decision value	1.25
SVM RNA-class probability	0.935671
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953590 120 + 22224390
GAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUUACGGGUGCAUGGAGUAAACCAUGAUCAUCGCUGGUCGACAACAGUUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUC
...........(((((((.((((....)))).)..((((.....)))).)))))).......((((.((((...((((...((((((((...))))))))....))))...)))).)))) ( -37.90)
>DroSec_CAF1 21946 120 + 1
GAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUCACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUC
...........((((...)))).((((.((..((((((((.(((((.((((((....))))))......((((.....)))).))))).)))))...(((.....))).)))..)))))) ( -44.40)
>DroSim_CAF1 16467 120 + 1
GAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUCACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUC
...........((((...)))).((((.((..((((((((.(((((.((((((....))))))......((((.....)))).))))).)))))...(((.....))).)))..)))))) ( -44.40)
>DroEre_CAF1 20569 120 + 1
GAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUCACGGGUGCAUGGAGUAGUCCAUGAUCGUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAGCUGUGACGAUC
(.((((.....(((((((.((((....)))).)..((((.....)))).)))))))))))..(((((((((.(.((((...(((.((((...)))).)))....)))).).))))))))) ( -45.70)
>DroYak_CAF1 4012 120 + 1
GAGACUCAUUAGCUCCAGGAGCGGAUCGGUUGCGGGCAUCACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUC
...........((((...)))).(((((.(..((((((((.(((((.((((((....))))))......((((.....)))).))))).)))))...(((.....))).)))..)))))) ( -44.40)
>consensus
GAGACUCAUUAGCUCCAGGAGCGGAUCCGUUGCGGGCAUCACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUC
...........((((...)))).((((.((..((((((((.(((((.((((((....))))))......((((.....)))).))))).)))))...(((.....))).)))..)))))) (-39.18 = -40.16 +   0.98)

alignment

secondary structure

dotplot

Window 6

Location	15,953,630 – 15,953,750
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.83
Mean single sequence MFE	-47.74
Consensus MFE	-41.38
Energy contribution	-42.52
Covariance contribution	1.14
Combinations/Pair	1.03
Mean z-score	-2.61
Structure conservation index	0.87
SVM decision value	2.85
SVM RNA-class probability	0.997371
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953630 120 + 22224390
ACGGGUGCAUGGAGUAAACCAUGAUCAUCGCUGGUCGACAACAGUUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGUUUCGAGGGAAAUGCCGCAUUGCAGCCAUCU
..((.(((((((......))))((((.((((...((((...((((((((...))))))))....))))...)))).))))(((((...(((((....))))))))))...))).)).... ( -45.00)
>DroSec_CAF1 21986 120 + 1
ACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGCUUCGAGGGAAAUGCCGCAUUGCAGCCAUCU
..((.((((((((....)))))((((.((((...((((...(((.((((...)))).)))....))))...)))).))))(((((..(.(.....).)....)))))...))).)).... ( -44.50)
>DroSim_CAF1 16507 120 + 1
ACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGUUUCGAGGGAAAUGCCGCAUUGCAGCCAUCU
..((.((((((((....)))))((((.((((...((((...(((.((((...)))).)))....))))...)))).))))(((((...(((((....))))))))))...))).)).... ( -45.80)
>DroEre_CAF1 20609 120 + 1
ACGGGUGCAUGGAGUAGUCCAUGAUCGUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAGCUGUGACGAUCGCGGCUGCGUUUCGAGGGAAACGCGGCAUUGCAGCCAUCU
..((.((((((((....)))))(((((((((.(.((((...(((.((((...)))).)))....)))).).)))))))))...((((((((((....))))))))))...))).)).... ( -55.00)
>DroYak_CAF1 4052 120 + 1
ACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGUUUCGAGGGAAAUGCGGCAUUGCAGCCAUCU
..((.((((((((....)))))((((.((((...((((...(((.((((...)))).)))....))))...)))).))))...((((((((((....))))))))))...))).)).... ( -48.40)
>consensus
ACGGGUGCAUGGAGUAAUCCAUGAUCAUCGCUGGUCGACAGCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGUUUCGAGGGAAAUGCCGCAUUGCAGCCAUCU
..((.((((((((....)))))((((.((((.(.((((...(((.((((...)))).)))....)))).).)))).))))...((.(((((((....))))))).))...))).)).... (-41.38 = -42.52 +   1.14)

alignment

secondary structure

dotplot

Window 7

Location	15,953,630 – 15,953,750
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	96.83
Mean single sequence MFE	-38.68
Consensus MFE	-36.80
Energy contribution	-36.72
Covariance contribution	-0.08
Combinations/Pair	1.07
Mean z-score	-1.76
Structure conservation index	0.95
SVM decision value	2.33
SVM RNA-class probability	0.992515
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953630 120 - 22224390
AGAUGGCUGCAAUGCGGCAUUUCCCUCGAAACGCAGCCGCGAUCGUCACAGUUCGAAUCUCAAUUUGCAUCGCAAACUGUUGUCGACCAGCGAUGAUCAUGGUUUACUCCAUGCACCCGU
..((((.(((...(((((.((((....))))....)))))(((((((.(.(.((((....((.(((((...))))).))...)))).).).)))))))((((......))))))).)))) ( -38.80)
>DroSec_CAF1 21986 120 - 1
AGAUGGCUGCAAUGCGGCAUUUCCCUCGAAGCGCAGCCGCGAUCGUCACAGUUCGAAUCUCAAUUUGCAUCGCAAGCUGCUGUCGACCAGCGAUGAUCAUGGAUUACUCCAUGCACCCGU
..((((.(((...(((((.((((....))))....)))))(((((((.(.(.((((....((.(((((...))))).))...)))).).).)))))))(((((....)))))))).)))) ( -38.50)
>DroSim_CAF1 16507 120 - 1
AGAUGGCUGCAAUGCGGCAUUUCCCUCGAAACGCAGCCGCGAUCGUCACAGUUCGAAUCUCAAUUUGCAUCGCAAGCUGCUGUCGACCAGCGAUGAUCAUGGAUUACUCCAUGCACCCGU
..((((.(((...(((((.((((....))))....)))))(((((((.(.(.((((....((.(((((...))))).))...)))).).).)))))))(((((....)))))))).)))) ( -38.80)
>DroEre_CAF1 20609 120 - 1
AGAUGGCUGCAAUGCCGCGUUUCCCUCGAAACGCAGCCGCGAUCGUCACAGCUCGAAUCUCAAUUUGCAUCGCAAGCUGCUGUCGACCAGCGACGAUCAUGGACUACUCCAUGCACCCGU
..((((.(((...((.(((((((....))))))).))...(((((((..(((((((..(.......)..)))..))))((((.....)))))))))))(((((....)))))))).)))) ( -42.60)
>DroYak_CAF1 4052 120 - 1
AGAUGGCUGCAAUGCCGCAUUUCCCUCGAAACGCAGCCGCGAUCGUCACAGUUCGAAUCUCAAUUUGCAUCGCAAGCUGCUGUCGACCAGCGAUGAUCAUGGAUUACUCCAUGCACCCGU
..((((.(((...((.((.((((....)))).)).))...(((((((.(.(.((((....((.(((((...))))).))...)))).).).)))))))(((((....)))))))).)))) ( -34.70)
>consensus
AGAUGGCUGCAAUGCGGCAUUUCCCUCGAAACGCAGCCGCGAUCGUCACAGUUCGAAUCUCAAUUUGCAUCGCAAGCUGCUGUCGACCAGCGAUGAUCAUGGAUUACUCCAUGCACCCGU
..((((.(((...(((((.((((....))))....)))))(((((((.(.(.((((....((.(((((...))))).))...)))).).).)))))))((((......))))))).)))) (-36.80 = -36.72 +  -0.08)

alignment

secondary structure

dotplot

Window 8

Location	15,953,670 – 15,953,790
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	97.83
Mean single sequence MFE	-43.88
Consensus MFE	-42.22
Energy contribution	-42.10
Covariance contribution	-0.12
Combinations/Pair	1.06
Mean z-score	-1.40
Structure conservation index	0.96
SVM decision value	0.99
SVM RNA-class probability	0.896298
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953670 120 + 22224390
ACAGUUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGUUUCGAGGGAAAUGCCGCAUUGCAGCCAUCUAUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGU
.(((.(((((((((...............(((((.....)))))..(((((((....))))))).)))))))))((((((...((((((.....))))))....)))))).....))).. ( -42.40)
>DroSec_CAF1 22026 120 + 1
GCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGCUUCGAGGGAAAUGCCGCAUUGCAGCCAUCUAUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGU
..(((.((((((((.......((..((..(((((.....)))))...))..))..((......))))))))))(((((((...((((((.....))))))....)))))).))))..... ( -40.30)
>DroSim_CAF1 16547 120 + 1
GCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGUUUCGAGGGAAAUGCCGCAUUGCAGCCAUCUAUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGU
..(((.((((((((...............(((((.....)))))..(((((((....))))))).))))))))(((((((...((((((.....))))))....)))))).))))..... ( -42.50)
>DroEre_CAF1 20649 120 + 1
GCAGCUUGCGAUGCAAAUUGAGAUUCGAGCUGUGACGAUCGCGGCUGCGUUUCGAGGGAAACGCGGCAUUGCAGCCAUCUAUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGU
..(((.((((((((.............(((((((.....)))))))(((((((....))))))).))))))))(((((((...((((((.....))))))....)))))).))))..... ( -50.10)
>DroYak_CAF1 4092 120 + 1
GCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGUUUCGAGGGAAAUGCGGCAUUGCAGCCAUCUAUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGU
.(((...(((.(((((..............((((.....))))((((((((((....)))))))))).))))).((((((...((((((.....))))))....)))))).))).))).. ( -44.10)
>consensus
GCAGCUUGCGAUGCAAAUUGAGAUUCGAACUGUGACGAUCGCGGCUGCGUUUCGAGGGAAAUGCCGCAUUGCAGCCAUCUAUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGU
..((((((((((((...............(((((.....)))))..(((((((....))))))).)))))))))((((((...((((((.....))))))....))))))..)))..... (-42.22 = -42.10 +  -0.12)

alignment

secondary structure

dotplot

Window 9

Location	15,953,710 – 15,953,830
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.33
Mean single sequence MFE	-31.33
Consensus MFE	-29.47
Energy contribution	-29.87
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.59
Structure conservation index	0.94
SVM decision value	1.30
SVM RNA-class probability	0.939374
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953710 120 - 22224390
GGUGAGAUAUUCCAAAAUCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAUAGAUGGCUGCAAUGCGGCAUUUCCCUCGAAACGCAGCCGC
((((.(((........))).............(((((.........)))))))))....(((((((.....)))))........((((((....(((........)))....)))))))) ( -31.80)
>DroSec_CAF1 22066 120 - 1
GGUGAGAUAUUCCAAAACCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAUAGAUGGCUGCAAUGCGGCAUUUCCCUCGAAGCGCAGCCGC
((((((((.................)))))..(((((.........))))).)))....(((((((.....)))))........((((((....(((........)))....)))))))) ( -31.43)
>DroSim_CAF1 16587 120 - 1
GGUGAGAUAUUCCAAAACCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAUAGAUGGCUGCAAUGCGGCAUUUCCCUCGAAACGCAGCCGC
((((((((.................)))))..(((((.........))))).)))....(((((((.....)))))........((((((....(((........)))....)))))))) ( -31.43)
>DroEre_CAF1 20689 120 - 1
GGUGAGAUAUUCCAAAACCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAUAGAUGGCUGCAAUGCCGCGUUUCCCUCGAAACGCAGCCGC
((((((((.................)))))..(((((.........))))).)))....(((((((.....)))).........(((......)))(((((((....))))))))))... ( -33.33)
>DroYak_CAF1 4132 120 - 1
GGUGAGAUAUUCCAAAAUCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAUAGAUGGCUGCAAUGCCGCAUUUCCCUCGAAACGCAGCCGC
((((.(((........))).............(((((.........)))))))))....(((((((.....)))))........((((((......................)))))))) ( -28.65)
>consensus
GGUGAGAUAUUCCAAAACCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAUAGAUGGCUGCAAUGCGGCAUUUCCCUCGAAACGCAGCCGC
((((((((.................)))))..(((((.........))))).)))....(((((((.....)))))........((((((....(((........)))....)))))))) (-29.47 = -29.87 +   0.40)

alignment

secondary structure

dotplot

Window 0

Location	15,953,750 – 15,953,870
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.17
Mean single sequence MFE	-41.46
Consensus MFE	-39.14
Energy contribution	-39.74
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.36
Structure conservation index	0.94
SVM decision value	0.64
SVM RNA-class probability	0.808111
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953750 120 + 22224390
AUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGUGGUGCGUCUUGAGAUGAAAGUGAUUUUGGAAUAUCUCACCGCAGGCGGUGCACUUUAGGGGGUUCUCCUUAUCGAUUGGC
...((((((.....))))))..(((((.((((.((((((.(((((.....(((((((((....)))).....)))))((((....))))))))))))))).)))).)))))......... ( -42.70)
>DroSec_CAF1 22106 120 + 1
AUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGUGGUGCGUCUUGAGAUGAAAGUGGUUUUGGAAUAUCUCACCGCAGGCGGUGCACUUUAGGGGGUUCUCCUUAUCGAUGGGC
...((((((.....))))))..(((((.((((.((((((.(((((.....((((((.(((....)))....))))))((((....))))))))))))))).)))).)))))......... ( -42.00)
>DroSim_CAF1 16627 120 + 1
AUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGUGGUGCGUCUUGAGAUGAAAGUGGUUUUGGAAUAUCUCACCGCAGGCGGUGCACUUUAGGGGGUUCUCCUUAUCGAUGGGC
...((((((.....))))))..(((((.((((.((((((.(((((.....((((((.(((....)))....))))))((((....))))))))))))))).)))).)))))......... ( -42.00)
>DroEre_CAF1 20729 120 + 1
AUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGUGGUGCGUCUUGAGAUGAAAGUGGUUUUGGAAUAUCUCACCGCAGGCGGUGCACUUUAGGGGGUUCUCCUUAUCGAUGGGC
...((((((.....))))))..(((((.((((.((((((.(((((.....((((((.(((....)))....))))))((((....))))))))))))))).)))).)))))......... ( -42.00)
>DroYak_CAF1 4172 120 + 1
AUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGUGGUGCGUCUUGAGAUGAAAGUGAUUUUGGAAUAUCUCACCACAGGCGGUGCACUUAAGGGGAUUCUCCUUAUCGAUGGGC
....(((((.....)))))(((((.(((((((((.(.....).)))))).(((((((((....)))).....)))))))).))))).((.((..(((((((...)))))))....)).)) ( -38.60)
>consensus
AUAUUGCACUUGUGGUGCAGCUUGAGGUGGACGCUCUGGUGGUGCGUCUUGAGAUGAAAGUGGUUUUGGAAUAUCUCACCGCAGGCGGUGCACUUUAGGGGGUUCUCCUUAUCGAUGGGC
...((((((.....))))))..(((((.((((.((((((.(((((.....((((((.(((....)))....))))))((((....))))))))))))))).)))).)))))......... (-39.14 = -39.74 +   0.60)

alignment

secondary structure

dotplot

Window 1

Location	15,953,750 – 15,953,870
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.17
Mean single sequence MFE	-26.80
Consensus MFE	-25.47
Energy contribution	-25.47
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.34
Structure conservation index	0.95
SVM decision value	0.60
SVM RNA-class probability	0.796605
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15953750 120 - 22224390
GCCAAUCGAUAAGGAGAACCCCCUAAAGUGCACCGCCUGCGGUGAGAUAUUCCAAAAUCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAU
(((........(((.......)))...(((((..((.((.((((.(((........))).............(((((.........))))))))).)).))))))).....).))..... ( -26.50)
>DroSec_CAF1 22106 120 - 1
GCCCAUCGAUAAGGAGAACCCCCUAAAGUGCACCGCCUGCGGUGAGAUAUUCCAAAACCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAU
((.(.......(((.......)))...(((((..((.((.((((((((.................)))))..(((((.........))))).))).)).))))))).....).))..... ( -26.13)
>DroSim_CAF1 16627 120 - 1
GCCCAUCGAUAAGGAGAACCCCCUAAAGUGCACCGCCUGCGGUGAGAUAUUCCAAAACCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAU
((.(.......(((.......)))...(((((..((.((.((((((((.................)))))..(((((.........))))).))).)).))))))).....).))..... ( -26.13)
>DroEre_CAF1 20729 120 - 1
GCCCAUCGAUAAGGAGAACCCCCUAAAGUGCACCGCCUGCGGUGAGAUAUUCCAAAACCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAU
((.(.......(((.......)))...(((((..((.((.((((((((.................)))))..(((((.........))))).))).)).))))))).....).))..... ( -26.13)
>DroYak_CAF1 4172 120 - 1
GCCCAUCGAUAAGGAGAAUCCCCUUAAGUGCACCGCCUGUGGUGAGAUAUUCCAAAAUCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAU
((.(.....(((((.......))))).(((((..((.((.((((.(((........))).............(((((.........))))))))).)).))))))).....).))..... ( -29.10)
>consensus
GCCCAUCGAUAAGGAGAACCCCCUAAAGUGCACCGCCUGCGGUGAGAUAUUCCAAAACCACUUUCAUCUCAAGACGCACCACCAGAGCGUCCACCUCAAGCUGCACCACAAGUGCAAUAU
((.........(((.......)))...(((((..((.((.((((((((.................)))))..(((((.........))))).))).)).))))))).......))..... (-25.47 = -25.47 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:45 2006