Locus 6263

Sequence ID	X_DroMel_CAF1
Location	15,927,885 – 15,928,030
Length	145
Max. P	0.964000

overview

Window 6

Location	15,927,885 – 15,928,005
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	90.25
Mean single sequence MFE	-30.34
Consensus MFE	-25.86
Energy contribution	-27.02
Covariance contribution	1.16
Combinations/Pair	1.15
Mean z-score	-1.86
Structure conservation index	0.85
SVM decision value	1.56
SVM RNA-class probability	0.964000
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15927885 120 + 22224390
CUAGCACACUCUGUCCUUAAGUAUAUCUUGGGAUUAAAGUAUAUAUGUAUAUGUGACCUCUGUUGCGAAAUUUCGAUCCCUUCUUCCCUACGGGAUGAAGAUAGAGGUCAUCGUCUUGAU
(.((.(((((..(((((.(((.....))))))))...)))............(((((((((((..(((....)))....((((.((((...)))).))))))))))))))).)))).).. ( -32.80)
>DroSec_CAF1 26436 104 + 1
CUAGCACACUUUGUCCUUAAGUAUAUCUUGGGAUUAAAGUAUAUAUGUAUAUGUGACCUCUGUUGCGAAAUUUCGAUCC----------------UGAAGAUAGAGGUCAUCGUCUUGAU
(.((.((((((((..((((((.....))))))..))))))............((((((((((((.(((....)))....----------------....)))))))))))).)))).).. ( -26.80)
>DroSim_CAF1 11610 120 + 1
CUAGCACACUUUGUCCUUAAGUAUAUCUUGGGAUUAAAGUAUAUAUGUAUAUGUGACCUCUGUUGCGAAAUUUCGAUCCUUUCUUCCCUACGGGAUGAAGAUAGAGGUCAUCGUCUUGAU
(.((.((((((((..((((((.....))))))..))))))............((((((((((((.(((....))).....(((.((((...)))).))))))))))))))).)))).).. ( -33.90)
>DroEre_CAF1 19847 120 + 1
CUAGCACACGUUGUCCUUAAGUAUAUCUUGGGAUUAAAGUAUAUAUGUAUAUGUGACCUCUGUGGUGAAAUUUCGAUCCCAUUUUCCCUUCGGGAUAAAGACAAAGGUCAUCGUCUUGAU
.......(((.((.((((..........((((((..(((((((((....))))).(((.....)))...))))..)))))).....((....)).........)))).)).)))...... ( -26.60)
>DroYak_CAF1 10820 120 + 1
CUAGCACACGUUGUCCUUAAGUAUAUCUUGGGAUUAAAGUAUAUAUGUAUAUGUGACCUCUGUGGCGAAUUUUCGAUCCCUUUUUUCCUUCGGGAUGAAGAUAGAGGUCAUCGUCUUGAU
(.((.((((...(((((.(((.....))))))))....))............(((((((((((..(((....)))....((((..(((....))).))))))))))))))).)))).).. ( -31.60)
>consensus
CUAGCACACUUUGUCCUUAAGUAUAUCUUGGGAUUAAAGUAUAUAUGUAUAUGUGACCUCUGUUGCGAAAUUUCGAUCCCUUCUUCCCUACGGGAUGAAGAUAGAGGUCAUCGUCUUGAU
(.((.((((((((..((((((.....))))))..))))))............(((((((((((..(((....)))....((((.((((...)))).))))))))))))))).)))).).. (-25.86 = -27.02 +   1.16)

alignment

secondary structure

dotplot

Window 7

Location	15,927,925 – 15,928,030
Length	105
Sequences	5
Columns	106
Reading direction	forward
Mean pairwise identity	87.29
Mean single sequence MFE	-27.06
Consensus MFE	-22.34
Energy contribution	-23.10
Covariance contribution	0.76
Combinations/Pair	1.19
Mean z-score	-1.89
Structure conservation index	0.83
SVM decision value	1.07
SVM RNA-class probability	0.910316
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15927925 105 + 22224390
AUAUAUGUAUAUGUGACCUCUGUUGCGAAAUUUCGAUCCCUUCUUCCCUACGGGAUGAAGAUAGAGGUCAUCGUCUUGAUGCGUAGAUUAU-AUAUAAGAUUGCGG
...((((((((.(((((((((((..(((....)))....((((.((((...)))).))))))))))))))).((((........)))))))-)))))......... ( -31.20)
>DroSec_CAF1 26476 89 + 1
AUAUAUGUAUAUGUGACCUCUGUUGCGAAAUUUCGAUCC----------------UGAAGAUAGAGGUCAUCGUCUUGAUGCGUAGAUUAU-AUAUAAGAUUGGGG
...((((((((.((((((((((((.(((....)))....----------------....)))))))))))).((((........)))))))-)))))......... ( -22.90)
>DroSim_CAF1 11650 105 + 1
AUAUAUGUAUAUGUGACCUCUGUUGCGAAAUUUCGAUCCUUUCUUCCCUACGGGAUGAAGAUAGAGGUCAUCGUCUUGAUGCGUAGAUUAU-AUAUAAGAUUGGGG
...((((((((.((((((((((((.(((....))).....(((.((((...)))).))))))))))))))).((((........)))))))-)))))......... ( -30.00)
>DroEre_CAF1 19887 105 + 1
AUAUAUGUAUAUGUGACCUCUGUGGUGAAAUUUCGAUCCCAUUUUCCCUUCGGGAUAAAGACAAAGGUCAUCGUCUUGAUGCGUAGAUUAU-AUAUAAGAUUGUAG
...((((((((.(((((((.(((((.((........))))......((....))......))).))))))).((((........)))))))-)))))......... ( -23.20)
>DroYak_CAF1 10860 106 + 1
AUAUAUGUAUAUGUGACCUCUGUGGCGAAUUUUCGAUCCCUUUUUUCCUUCGGGAUGAAGAUAGAGGUCAUCGUCUUGAUGCGUUGAUUAUUAUAUUAUAUUGGGG
............(((((((((((..(((....)))....((((..(((....))).)))))))))))))))...((..(((...((((......)))))))..)). ( -28.00)
>consensus
AUAUAUGUAUAUGUGACCUCUGUUGCGAAAUUUCGAUCCCUUCUUCCCUACGGGAUGAAGAUAGAGGUCAUCGUCUUGAUGCGUAGAUUAU_AUAUAAGAUUGGGG
...((((((((((((((((((((..(((....)))....((((.((((...)))).)))))))))))))).)))....)))))))..................... (-22.34 = -23.10 +   0.76)

alignment

secondary structure

dotplot

Window 8

Location	15,927,925 – 15,928,030
Length	105
Sequences	5
Columns	106
Reading direction	reverse
Mean pairwise identity	87.29
Mean single sequence MFE	-19.68
Consensus MFE	-13.30
Energy contribution	-14.78
Covariance contribution	1.48
Combinations/Pair	1.10
Mean z-score	-1.94
Structure conservation index	0.68
SVM decision value	0.07
SVM RNA-class probability	0.570993
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15927925 105 - 22224390
CCGCAAUCUUAUAU-AUAAUCUACGCAUCAAGACGAUGACCUCUAUCUUCAUCCCGUAGGGAAGAAGGGAUCGAAAUUUCGCAACAGAGGUCACAUAUACAUAUAU
..........((((-((..(((........))).(.((((((((.(((((.((((...)))).)))))...(((....)))....)))))))))......)))))) ( -23.80)
>DroSec_CAF1 26476 89 - 1
CCCCAAUCUUAUAU-AUAAUCUACGCAUCAAGACGAUGACCUCUAUCUUCA----------------GGAUCGAAAUUUCGCAACAGAGGUCACAUAUACAUAUAU
..........((((-((..(((........))).(.(((((((((((....----------------.)))(((....)))....)))))))))......)))))) ( -13.60)
>DroSim_CAF1 11650 105 - 1
CCCCAAUCUUAUAU-AUAAUCUACGCAUCAAGACGAUGACCUCUAUCUUCAUCCCGUAGGGAAGAAAGGAUCGAAAUUUCGCAACAGAGGUCACAUAUACAUAUAU
..........((((-((..(((........))).(.((((((((...(((.((((...)))).))).(...(((....)))...))))))))))......)))))) ( -20.50)
>DroEre_CAF1 19887 105 - 1
CUACAAUCUUAUAU-AUAAUCUACGCAUCAAGACGAUGACCUUUGUCUUUAUCCCGAAGGGAAAAUGGGAUCGAAAUUUCACCACAGAGGUCACAUAUACAUAUAU
..........((((-((..(((........))).(.((((((((((.....((((...))))....((((........)).)))))))))))))......)))))) ( -21.50)
>DroYak_CAF1 10860 106 - 1
CCCCAAUAUAAUAUAAUAAUCAACGCAUCAAGACGAUGACCUCUAUCUUCAUCCCGAAGGAAAAAAGGGAUCGAAAAUUCGCCACAGAGGUCACAUAUACAUAUAU
.....(((((.((((........((........)).((((((((.(((((.....)))))......((((........)).))..))))))))..))))..))))) ( -19.00)
>consensus
CCCCAAUCUUAUAU_AUAAUCUACGCAUCAAGACGAUGACCUCUAUCUUCAUCCCGAAGGGAAAAAGGGAUCGAAAUUUCGCAACAGAGGUCACAUAUACAUAUAU
..................................(.((((((((.(((((.((((...)))).)))))((........)).....)))))))))............ (-13.30 = -14.78 +   1.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:09:03 2006