Locus 607

Sequence ID	3L_DroMel_CAF1
Location	1,764,744 – 1,765,064
Length	320
Max. P	0.999990

overview

Window 6

Location	1,764,744 – 1,764,864
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	96.17
Mean single sequence MFE	-37.85
Consensus MFE	-33.01
Energy contribution	-33.03
Covariance contribution	0.03
Combinations/Pair	1.03
Mean z-score	-1.85
Structure conservation index	0.87
SVM decision value	1.09
SVM RNA-class probability	0.914209
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1764744 120 + 23771897
UGAUCUUUUGCAGAUUACGCCAGGUCUCCUCAAGAGCUUCCAUGGUGAACCACGUGUACGGGUUGGGUCCAACAUUAAAGCUCUUGAUCUUCUGGUCGAGUGCUGCCAAUGCCUUGAAGU
((((((.....))))))..(((((.....((((((((((((.(((....))).(....)))((((....))))....))))))))))...)))))(((((.((.......)))))))... ( -36.70)
>DroVir_CAF1 1903 120 + 1
UGAUCUUUUGCAGAUUACGCCAGGUCUCCUCAAGAGCUUCCAUGGUGAACCAGGUGUACGGAUUUGGUCCAACAUUAAAGCUCUUGAUCUUCUGGUCGAGCGCUGCCAAUGCCUUAAAGU
.........((((....(((((((.....((((((((((..(((.((.(((((((......))))))).)).)))..))))))))))...))))).))....)))).............. ( -38.80)
>DroGri_CAF1 2395 120 + 1
UGAUCUUUUGCAAGUUACGCCAGGUCUCCUCAAGAGCUUCCAUGGUGAACCAUGUGUAUGGAUUGGGUCCAACAUUAAAGCUCUUGAUCUUCUGGUCGAGUGCUGCCAAUGCCUUAAAGU
.........(((.((..(((((((.....((((((((((.(((((....)))))(((.(((((...))))))))...))))))))))...))))).))...))))).............. ( -37.50)
>DroWil_CAF1 2671 120 + 1
UGAUCUUUUGCAGAUUACGCCAGGUCUCCUCAAGAGCUUCCAUGGUGAACCAUGUGUAUGGAUUCGGUCCAACAUUAAAGCUCUUGAUCUUCUGGUCGAGUGCUGCCAAUGCCUUAAAGU
.........(((((((.(((((((.....((((((((((.(((((....)))))(((.(((((...))))))))...))))))))))...))))).))))).)))).............. ( -40.30)
>DroMoj_CAF1 2240 120 + 1
UGAUCUUUUGCAGAUUACGCCAGGUCUCCUCAAGAGCUUCCAUGGUGAACCAGGUGUACGGAUUCGGUCCAACAUUAAAGCUCUUGAUCUUCUGGUCGAGUGCUGCCAAUGCCUUAAAGU
.........(((((((.(((((((.....((((((((((...(((....)))(((((..((((...)))).))))).))))))))))...))))).))))).)))).............. ( -36.70)
>DroAna_CAF1 2024 120 + 1
UGAUCUUUUGCAGGUUACGCCAGGUCUCCUCAAGAGCUUCCAUGGUGAACCAGGUGUAGGGAUUGGGUCCAACAUUAAAGCUCUUGAUCUUCUGGUCGAGUGCUGCCAAUGCCUUGAAAU
............((((.(((((((.(((.....)))...)).)))))))))((((((.((..(((....)))......(((.(((((((....))))))).))).)).))))))...... ( -37.10)
>consensus
UGAUCUUUUGCAGAUUACGCCAGGUCUCCUCAAGAGCUUCCAUGGUGAACCAGGUGUACGGAUUGGGUCCAACAUUAAAGCUCUUGAUCUUCUGGUCGAGUGCUGCCAAUGCCUUAAAGU
.........((((....(((((((.....((((((((((..(((.((.(((..((......))..))).)).)))..))))))))))...))))).))....)))).............. (-33.01 = -33.03 +   0.03)

alignment

secondary structure

dotplot

Window 7

Location	1,764,744 – 1,764,864
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	96.17
Mean single sequence MFE	-40.89
Consensus MFE	-39.88
Energy contribution	-39.74
Covariance contribution	-0.14
Combinations/Pair	1.03
Mean z-score	-3.30
Structure conservation index	0.98
SVM decision value	5.58
SVM RNA-class probability	0.999990
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1764744 120 - 23771897
ACUUCAAGGCAUUGGCAGCACUCGACCAGAAGAUCAAGAGCUUUAAUGUUGGACCCAACCCGUACACGUGGUUCACCAUGGAAGCUCUUGAGGAGACCUGGCGUAAUCUGCAAAAGAUCA
..............((((....((.((((....(((((((((((...((((....)))).......(((((....))))))))))))))))(....)))))))....))))......... ( -40.70)
>DroVir_CAF1 1903 120 - 1
ACUUUAAGGCAUUGGCAGCGCUCGACCAGAAGAUCAAGAGCUUUAAUGUUGGACCAAAUCCGUACACCUGGUUCACCAUGGAAGCUCUUGAGGAGACCUGGCGUAAUCUGCAAAAGAUCA
..............((((....((.((((....(((((((((((.(((.(((((((............))))))).))).)))))))))))(....)))))))....))))......... ( -41.80)
>DroGri_CAF1 2395 120 - 1
ACUUUAAGGCAUUGGCAGCACUCGACCAGAAGAUCAAGAGCUUUAAUGUUGGACCCAAUCCAUACACAUGGUUCACCAUGGAAGCUCUUGAGGAGACCUGGCGUAACUUGCAAAAGAUCA
.((((...((....)).(((..((.((((....(((((((((((..(((((((.....)))).)))(((((....))))))))))))))))(....))))))).....))).)))).... ( -40.10)
>DroWil_CAF1 2671 120 - 1
ACUUUAAGGCAUUGGCAGCACUCGACCAGAAGAUCAAGAGCUUUAAUGUUGGACCGAAUCCAUACACAUGGUUCACCAUGGAAGCUCUUGAGGAGACCUGGCGUAAUCUGCAAAAGAUCA
..............((((....((.((((....(((((((((((..(((((((.....)))).)))(((((....))))))))))))))))(....)))))))....))))......... ( -41.80)
>DroMoj_CAF1 2240 120 - 1
ACUUUAAGGCAUUGGCAGCACUCGACCAGAAGAUCAAGAGCUUUAAUGUUGGACCGAAUCCGUACACCUGGUUCACCAUGGAAGCUCUUGAGGAGACCUGGCGUAAUCUGCAAAAGAUCA
..............((((....((.((((....(((((((((((.(((.(((((((............))))))).))).)))))))))))(....)))))))....))))......... ( -41.10)
>DroAna_CAF1 2024 120 - 1
AUUUCAAGGCAUUGGCAGCACUCGACCAGAAGAUCAAGAGCUUUAAUGUUGGACCCAAUCCCUACACCUGGUUCACCAUGGAAGCUCUUGAGGAGACCUGGCGUAACCUGCAAAAGAUCA
..............((((....((.((((....(((((((((((.(((.((((((..............)))))).))).)))))))))))(....)))))))....))))......... ( -39.84)
>consensus
ACUUUAAGGCAUUGGCAGCACUCGACCAGAAGAUCAAGAGCUUUAAUGUUGGACCCAAUCCGUACACCUGGUUCACCAUGGAAGCUCUUGAGGAGACCUGGCGUAAUCUGCAAAAGAUCA
..............((((....((.((((....(((((((((((.(((.((((((..............)))))).))).)))))))))))(....)))))))....))))......... (-39.88 = -39.74 +  -0.14)

alignment

secondary structure

dotplot

Window 8

Location	1,764,864 – 1,764,984
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	92.50
Mean single sequence MFE	-40.77
Consensus MFE	-38.26
Energy contribution	-37.17
Covariance contribution	-1.08
Combinations/Pair	1.14
Mean z-score	-0.95
Structure conservation index	0.94
SVM decision value	0.06
SVM RNA-class probability	0.562589
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1764864 120 - 23771897
GGUUCGAAAAUGCCGAGGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUCCGCGCCCUGCGCGACGCCCAUGCCCAAUUCCAGGCGUCCCUUUCGUCGGCCGAAGCUG
(.((((....(((((((.((((((.....)))))).))))..)))..(((((.((((......((((...))))((((((..............)))))).)))).))))).)))).).. ( -42.94)
>DroVir_CAF1 2023 120 - 1
GGUUCGAAAAUGCCGAGGAGGAUCUCACGGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCCCUGCGUGACGCGCACGCACAAUUCCAAGCGUCUCUCUCAUCGGCCGAAGCUG
(.((((....(((((((.((((((.....)))))).))))..)))..(((((.(((((...((((....((((((.....)))))).........)))).))).))))))).)))).).. ( -38.12)
>DroGri_CAF1 2515 120 - 1
GGUUCGAGAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCCUUGCGUGAUGCCCACGCUCAAUUCCAAGCGUCCCUCUCAUCGGCCGAAGCUG
(.((((.((((((((((.((((((.....)))))).))))..)).))))..(((((((...((((.....(((((.....)))))..........))))...)))..)))).)))).).. ( -37.66)
>DroMoj_CAF1 2360 120 - 1
GGUUCGAAAAUGCCGAGGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCGCUGCGUGAUGCCCACGCCCAAUUCCAAGCGUCUCUUUCAUCGGCCGAAGCGG
(((........)))(((.((((((.....)))))).))).((((..((((..(((.((((.....((((((((((.....))))).........)))))...)))).)))..)))))))) ( -40.90)
>DroAna_CAF1 2144 120 - 1
GGUUCGAGAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCGCUGCAACUCGAUCGAAGAAAUUCGCGCCCUGCGCGACGCCCACGCCCAAUUCCAGGCGUCCCUGUCGUCGGCCGAAGCUG
(((.((((..(((((((.((((((.....)))))).))))..))).)))))))..((...((((.(((....((((((...(((((........)))))...)))))).))))))).)). ( -46.60)
>DroPer_CAF1 2447 120 - 1
GGUUCGAAAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCGUUGCGCGACGCCCACGCACAAUUCCAAGCGUCUCUGUCCUCGGCCGAAGCUG
((((((((..(((((((.((((((.....)))))).))))..))).))))).(((.((.....((((...))))(((((................)))))....)).))))))....... ( -38.39)
>consensus
GGUUCGAAAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCCCUGCGCGACGCCCACGCCCAAUUCCAAGCGUCCCUCUCAUCGGCCGAAGCUG
((((((((..(((((((.((((((.....)))))).))))..))).))))).(((.((.....((((...))))(((((................)))))....)).))))))....... (-38.26 = -37.17 +  -1.08)

alignment

secondary structure

dotplot

Window 9

Location	1,764,904 – 1,765,024
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	95.61
Mean single sequence MFE	-40.78
Consensus MFE	-36.01
Energy contribution	-36.62
Covariance contribution	0.61
Combinations/Pair	1.03
Mean z-score	-1.95
Structure conservation index	0.88
SVM decision value	1.55
SVM RNA-class probability	0.962855
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1764904 120 + 23771897
GGCGUCGCGCAGGGCGCGGAUUUCUUCGAUCGAAUUGCAGCGAACAGGAUCUGUGAGAUCCUCCUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUA
(((.((((((...))))))..(((((.(.(((((.(((..(((..((((((.....))))))..))))))..))))).).)))))......)))........((((((....)))))).. ( -41.50)
>DroVir_CAF1 2063 120 + 1
CGCGUCACGCAGGGCGCGUAUUUCUUCGAUCGAAUUGCAGCGAACAGGAUCCGUGAGAUCCUCCUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUA
((((((......))))))...(((((.(.(((((.(((..(((..(((((.(....))))))..))))))..))))).).)))))..((((((....))))))(((((....)))))... ( -40.20)
>DroPse_CAF1 2465 120 + 1
GGCGUCGCGCAACGCGCGUAUUUCUUCGAUCGAAUUGCAGCGAACAGGAUCUGUGAGAUCCUCUUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUA
(((..(((((...)))))...(((((.(.(((((.(((..((((.((((((.....)))))).)))))))..))))).).)))))......)))........((((((....)))))).. ( -42.00)
>DroGri_CAF1 2555 120 + 1
GGCAUCACGCAAGGCGCGUAUUUCUUCGAUCGAAUUGCAGCGAACAGGAUCUGUGAGAUCCUCUUCGGCAUUCUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUA
(((.((((((.....))))..(((((.(.((((..(((..((((.((((((.....)))))).)))))))...)))).).)))))..))..)))........((((((....)))))).. ( -38.60)
>DroMoj_CAF1 2400 120 + 1
GGCAUCACGCAGCGCGCGUAUUUCUUCGAUCGAAUUGCAGCGAACAGGAUCUGUGAGAUCCUCCUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAAUA
(((((.((((.....))))..(((((.(.(((((.(((..(((..((((((.....))))))..))))))..))))).).)))))..((((((....)))))).......)))))..... ( -36.30)
>DroAna_CAF1 2184 120 + 1
GGCGUCGCGCAGGGCGCGAAUUUCUUCGAUCGAGUUGCAGCGAACAGGAUCUGUGAGAUCCUCUUCGGCAUUCUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUA
(((.((((((...))))))..(((((.(.(((((.(((..((((.((((((.....)))))).)))))))..))))).).)))))......)))........((((((....)))))).. ( -46.10)
>consensus
GGCGUCACGCAGGGCGCGUAUUUCUUCGAUCGAAUUGCAGCGAACAGGAUCUGUGAGAUCCUCCUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUA
.(((((......)))))....(((((.(.(((((.(((..(((..((((((.....))))))..))))))..))))).).)))))..((((((....))))))(((((....)))))... (-36.01 = -36.62 +   0.61)

alignment

secondary structure

dotplot

Window 0

Location	1,764,904 – 1,765,024
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	95.61
Mean single sequence MFE	-41.20
Consensus MFE	-41.79
Energy contribution	-40.93
Covariance contribution	-0.86
Combinations/Pair	1.11
Mean z-score	-2.56
Structure conservation index	1.01
SVM decision value	5.59
SVM RNA-class probability	0.999990
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1764904 120 - 23771897
UACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAGGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUCCGCGCCCUGCGCGACGCC
............((...(((.((....)).)))..(((((.(.(((((..(((((((.((((((.....)))))).))))..))).))))).).)))))...(((((...)))))..)). ( -41.30)
>DroVir_CAF1 2063 120 - 1
UACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAGGAGGAUCUCACGGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCCCUGCGUGACGCG
............((...(((.((....)).)))..(((((.(.(((((..(((((((.((((((.....)))))).))))..))).))))).).)))))...(((((...)))))..)). ( -40.60)
>DroPse_CAF1 2465 120 - 1
UACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCGUUGCGCGACGCC
............((...(((.((....)).)))..(((((.(.(((((..(((((((.((((((.....)))))).))))..))).))))).).)))))...(((((...)))))..)). ( -41.80)
>DroGri_CAF1 2555 120 - 1
UACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAGAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCCUUGCGUGAUGCC
.................(((.((....)).)))..(((((.(.(((((..(((((((.((((((.....)))))).))))..))).))))).).)))))...(((((...)))))..... ( -39.30)
>DroMoj_CAF1 2400 120 - 1
UAUUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAGGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCGCUGCGUGAUGCC
..(((((.....((((((((.((....))......))))))))(((((..(((((((.((((((.....)))))).))))..))).))))))))))......(((((...)))))..... ( -39.50)
>DroAna_CAF1 2184 120 - 1
UACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAGAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCGCUGCAACUCGAUCGAAGAAAUUCGCGCCCUGCGCGACGCC
............((...(((.((....)).)))..(((((.(.(((((..(((((((.((((((.....)))))).))))..))).))))).).)))))..((((((...)))))).)). ( -44.70)
>consensus
UACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCGCUGCAAUUCGAUCGAAGAAAUACGCGCCCUGCGCGACGCC
............((...(((.((....)).)))..(((((.(.(((((..(((((((.((((((.....)))))).))))..))).))))).).)))))...(((((...)))))..)). (-41.79 = -40.93 +  -0.86)

alignment

secondary structure

dotplot

Window 1

Location	1,764,944 – 1,765,064
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	93.33
Mean single sequence MFE	-39.32
Consensus MFE	-36.15
Energy contribution	-36.07
Covariance contribution	-0.08
Combinations/Pair	1.08
Mean z-score	-1.84
Structure conservation index	0.92
SVM decision value	2.07
SVM RNA-class probability	0.987261
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1764944 120 + 23771897
CGAACAGGAUCUGUGAGAUCCUCCUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUAGAGUUCCUCGAUCUGGCGGAACUGCUCCUGCAUGGCCAGC
....((((((((((.(((((....(((((...(((((........))))).)))))((((((((((((....)))))).))))))....))))).))))).....))))).......... ( -40.30)
>DroVir_CAF1 2103 120 + 1
CGAACAGGAUCCGUGAGAUCCUCCUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUAGAGUUCCUCGAUUUGGCGGAACUGCUCUUGCAUGGCCAGC
.((.(((..(((((.(((((....(((((...(((((........))))).)))))((((((((((((....)))))).))))))....))))).))))).))).))............. ( -39.30)
>DroGri_CAF1 2595 120 + 1
CGAACAGGAUCUGUGAGAUCCUCUUCGGCAUUCUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUAGAGUUCCUCGAUUUGGCGGAAUUGCUCCUGCAUGGCCAGC
.(((.((((((.....)))))).)))(((((((.((..((((..(((((.((....((((((((((((....)))))).)))))))))))))))))))))))(((....)))..)))... ( -39.60)
>DroMoj_CAF1 2440 120 + 1
CGAACAGGAUCUGUGAGAUCCUCCUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAAUAGAGUUCCUCGAUUUGGCGGAAUUGCUCCUGCAUGGCCAGC
(((..((((((.....))))))..)))((...(((((........)))))(((((..((......(((((.((((((((.(((...))).))))))))...)))))...)).))))).)) ( -36.00)
>DroAna_CAF1 2224 120 + 1
CGAACAGGAUCUGUGAGAUCCUCUUCGGCAUUCUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUAGAGUUCCUCGAUCUGGCGGAACUGCUCCUGCAUUGCCAGA
.((((((((((.....))))))(((((((.(((..............))).)))))))((..((((((....)))))).)).)))).....((((((((...(((....))))))))))) ( -42.54)
>DroPer_CAF1 2527 120 + 1
CGAACAGGAUCUGUGAGAUCCUCUUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUAGAGUUCCUCGAUUUGGCGGAACUGCUCNNNNNNNNNNNNN
((((.((((((.....)))))).))))(((.(((((..((((..(((((.((....((((((((((((....)))))).)))))))))))))))))))))).)))............... ( -38.20)
>consensus
CGAACAGGAUCUGUGAGAUCCUCCUCGGCAUUUUCGAACCAAGAAUUGAAGGCCGAAGCUUUCUUGGCAAAUGUCAAGUAGAGUUCCUCGAUUUGGCGGAACUGCUCCUGCAUGGCCAGC
.((.(((..(((((.(((((....(((((...(((((........))))).)))))((((((((((((....)))))).))))))....))))).))))).))).))............. (-36.15 = -36.07 +  -0.08)

alignment

secondary structure

dotplot

Window 2

Location	1,764,944 – 1,765,064
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	93.33
Mean single sequence MFE	-40.10
Consensus MFE	-35.48
Energy contribution	-36.82
Covariance contribution	1.34
Combinations/Pair	1.08
Mean z-score	-2.32
Structure conservation index	0.88
SVM decision value	2.17
SVM RNA-class probability	0.989520
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1764944 120 - 23771897
GCUGGCCAUGCAGGAGCAGUUCCGCCAGAUCGAGGAACUCUACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAGGAGGAUCUCACAGAUCCUGUUCG
..((((.(((((((((.((((((..........)))))))).)))).)))..)))).(((.((....)).)))..((((((((........))))))))(((((.....)))))...... ( -42.30)
>DroVir_CAF1 2103 120 - 1
GCUGGCCAUGCAAGAGCAGUUCCGCCAAAUCGAGGAACUCUACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAGGAGGAUCUCACGGAUCCUGUUCG
..((((.(((((((((.((((((..........)))))))).)))).)))..)))).(((.((....)).)))..((((((((........))))))))(((((.....)))))...... ( -42.70)
>DroGri_CAF1 2595 120 - 1
GCUGGCCAUGCAGGAGCAAUUCCGCCAAAUCGAGGAACUCUACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAGAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCG
((((((.(((((((((...((((..........))))..)).)))).)))..)))).(((.((....)).))).(((((((...)))))))))((((.((((((.....)))))).)))) ( -38.70)
>DroMoj_CAF1 2440 120 - 1
GCUGGCCAUGCAGGAGCAAUUCCGCCAAAUCGAGGAACUCUAUUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAGGAGGAUCUCACAGAUCCUGUUCG
...(((......((((...((((..........)))))))).(((((.....((((((((.((....))......)))))))))))))...)))(((.((((((.....)))))).))). ( -36.10)
>DroAna_CAF1 2224 120 - 1
UCUGGCAAUGCAGGAGCAGUUCCGCCAGAUCGAGGAACUCUACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAGAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCG
..((((((((((((((.((((((..........)))))))).)))).)).)))))).(((.((....)).))).(((((((...)))))))..((((.((((((.....)))))).)))) ( -46.40)
>DroPer_CAF1 2527 120 - 1
NNNNNNNNNNNNNGAGCAGUUCCGCCAAAUCGAGGAACUCUACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCG
..............((.((((((..........))))))))......(((((((((((((.((....))......))))))))....))))).((((.((((((.....)))))).)))) ( -34.40)
>consensus
GCUGGCCAUGCAGGAGCAGUUCCGCCAAAUCGAGGAACUCUACUUGACAUUUGCCAAGAAAGCUUCGGCCUUCAAUUCUUGGUUCGAAAAUGCCGAAGAGGAUCUCACAGAUCCUGUUCG
...(((.(((((((((.((((((..........)))))))).)))).)))..((((((((.((....))......))))))))........)))(((.((((((.....)))))).))). (-35.48 = -36.82 +   1.34)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:35 2006