Locus 8397

Sequence ID	X_DroMel_CAF1
Location	20,849,901 – 20,850,001
Length	100
Max. P	0.910362

overview

Window 0

Location	20,849,901 – 20,850,001
Length	100
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	75.78
Mean single sequence MFE	-31.60
Consensus MFE	-6.78
Energy contribution	-7.86
Covariance contribution	1.08
Combinations/Pair	1.09
Mean z-score	-1.74
Structure conservation index	0.21
SVM decision value	0.41
SVM RNA-class probability	0.724797
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20849901 100 + 22224390
UAUCGAAUUUGGUGGUAUGUGCCGUG------CUACA---AGCUCGUAU-------UUCGAAUUCCCGUGAAAUGAGCAGGAACAGCAGGCCGGGAUCAUCGCCU----ACAUAAGUUUA
..........((((((.((.(((.((------((.(.---.((((((.(-------(.((......)).)).))))))..)...)))))))))..))))))....----........... ( -25.20)
>DroSec_CAF1 4909 104 + 1
UAUCGAAUUUGG---UAAGUGCCGUG------CUACGAAGAGCUCGUAU-------UUCGAGUUCCCCUGAAACGAGCAGGAACAGCUGGCCGGCCUCACCGCCUACCUACAUAAGUUUA
..........((---(.((.((((.(------((((...(((((((...-------..))))))).((((.......))))....).)))))))))).)))................... ( -31.50)
>DroSim_CAF1 5925 104 + 1
UAUCGAAUUUGG---UAGGUGCCGUG------CUACGAAGAGCUCGUGU-------UUCGAGUUCCCCUGAAACGAGCAGGAGCAGCUGGCCGGCCUCACCGCCUACCUACAUAAGUUUA
....((((((((---(((((((((.(------((.(...(((((((...-------..))))))).((((.......)))).).))))))).(((......))).)))))).))))))). ( -38.00)
>DroEre_CAF1 6066 92 + 1
UAUCGAAUUUGG---UAUGUGCCCAG------CUACC---AGCUCGGAU-------UUCGAAUUCCCCGAAAAUGAGCAGGAACAGCUGGCC---------AACUCACCACCUAAGUUUA
.........(((---(..((..((((------((.((---.(((((..(-------((((.......))))).))))).))...))))))..---------.))..)))).......... ( -27.70)
>DroYak_CAF1 5675 113 + 1
UAUCGAAUUUGG---UAUGUGUCCAGCUGCAGCUACG---AGUUCGGAUUCGGGAAUUCGAAUUCCCCGAAAACAAGCAGGAACAGCUGGCCA-CCUUACCAACUCACCACCUAAGUUUA
....((..((((---((.(((.(((((((.......(---((((((((((....))))))))))).((...........))..))))))).))-)..)))))).)).............. ( -35.60)
>consensus
UAUCGAAUUUGG___UAUGUGCCGUG______CUACG___AGCUCGUAU_______UUCGAAUUCCCCUGAAACGAGCAGGAACAGCUGGCCGGCCUCACCGCCUAACCACAUAAGUUUA
....(((((((.......(.(((.................((((((............))))))...........(((.......)))))))((........))........))))))). ( -6.78 =  -7.86 +   1.08)

alignment

secondary structure

dotplot

Window 1

Location	20,849,901 – 20,850,001
Length	100
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	75.78
Mean single sequence MFE	-34.14
Consensus MFE	-7.94
Energy contribution	-8.10
Covariance contribution	0.16
Combinations/Pair	1.08
Mean z-score	-2.01
Structure conservation index	0.23
SVM decision value	1.07
SVM RNA-class probability	0.910362
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20849901 100 - 22224390
UAAACUUAUGU----AGGCGAUGAUCCCGGCCUGCUGUUCCUGCUCAUUUCACGGGAAUUCGAA-------AUACGAGCU---UGUAG------CACGGCACAUACCACCAAAUUCGAUA
.........((----((((..........)))))).(((((((.........)))))))(((((-------......((.---....)------)..((......))......))))).. ( -21.40)
>DroSec_CAF1 4909 104 - 1
UAAACUUAUGUAGGUAGGCGGUGAGGCCGGCCAGCUGUUCCUGCUCGUUUCAGGGGAACUCGAA-------AUACGAGCUCUUCGUAG------CACGGCACUUA---CCAAAUUCGAUA
....(((((....))))).((((((((((....((((.....(((((((((..(....)..)))-------..))))))......)))------).)))).))))---)).......... ( -34.10)
>DroSim_CAF1 5925 104 - 1
UAAACUUAUGUAGGUAGGCGGUGAGGCCGGCCAGCUGCUCCUGCUCGUUUCAGGGGAACUCGAA-------ACACGAGCUCUUCGUAG------CACGGCACCUA---CCAAAUUCGAUA
............(((((((((.....)))(((.(((((....(((((((((..(....)..)))-------..)))))).....))))------)..))).))))---)).......... ( -38.60)
>DroEre_CAF1 6066 92 - 1
UAAACUUAGGUGGUGAGUU---------GGCCAGCUGUUCCUGCUCAUUUUCGGGGAAUUCGAA-------AUCCGAGCU---GGUAG------CUGGGCACAUA---CCAAAUUCGAUA
..........(((((.((.---------(.(((((((..((.((((..((((((.....)))))-------)...)))).---)))))------)))).))).))---)))......... ( -32.30)
>DroYak_CAF1 5675 113 - 1
UAAACUUAGGUGGUGAGUUGGUAAGG-UGGCCAGCUGUUCCUGCUUGUUUUCGGGGAAUUCGAAUUCCCGAAUCCGAACU---CGUAGCUGCAGCUGGACACAUA---CCAAAUUCGAUA
.............((((((((((..(-((.((((((((..(((((((..((((((((.......))))))))..)))...---.))))..)))))))).))).))---)).))))))... ( -44.30)
>consensus
UAAACUUAUGUAGGGAGGCGGUGAGGCCGGCCAGCUGUUCCUGCUCGUUUCAGGGGAAUUCGAA_______AUACGAGCU___CGUAG______CACGGCACAUA___CCAAAUUCGAUA
.............................(((....((((((...........))))))(((............)))....................))).................... ( -7.94 =  -8.10 +   0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:02:57 2006