Locus 5633

Sequence ID	X_DroMel_CAF1
Location	14,549,688 – 14,549,818
Length	130
Max. P	0.990036

overview

Window 9

Location	14,549,688 – 14,549,789
Length	101
Sequences	5
Columns	101
Reading direction	forward
Mean pairwise identity	96.83
Mean single sequence MFE	-28.04
Consensus MFE	-25.27
Energy contribution	-25.51
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-1.93
Structure conservation index	0.90
SVM decision value	2.19
SVM RNA-class probability	0.990036
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14549688 101 + 22224390
CAAAGGGAAUACCCUAACUUCACGCCAAUUCGUUGCAGUGCUACUUUACGAUCCCAACCGGUUCAAAUUGGGAUCGGUCUCUUAAGAUGCAACAAAGUUUG
...((((....))))................((((((...........(((((((((..........)))))))))...........))))))........ ( -27.05)
>DroSec_CAF1 25475 101 + 1
CAAAGGGAAUACCCUAACUUCACGCCAAUUCGUUGCAGUGCUACUUUACGAUCCCAACCGGUUCCAAUUGGGAUCGGUCUCUUAAGAUGCAACAAAGUUUG
...((((....))))................((((((...........(((((((((..(....)..)))))))))...........))))))........ ( -28.65)
>DroSim_CAF1 26222 101 + 1
CAAAGGGAAUACCCUAACUUCACGCCAAUUCGUUGCAGUGCUACUUUACGAUCCCAACCGGUUCCAAUUGGGAUCGGUCUCUUAAGAUGCAACAAAGUUUG
...((((....))))................((((((...........(((((((((..(....)..)))))))))...........))))))........ ( -28.65)
>DroEre_CAF1 20678 101 + 1
CAAAGGGAAUACCCUAACUUCACGCCAAUUCGUUGCAGUGCUACUUUACGAUCCCAACCGGUUCGAAUUGGGAUCGGCCGCUUAAGAUGCAACAAAGUUUG
...((((....))))................((((((...........(((((((((..........)))))))))...........))))))........ ( -27.05)
>DroYak_CAF1 23314 101 + 1
CAAAGGGAAUACCCUAACUUCACGGCAAUUCGCUGCAGUGCUACUUUACGAUCCUAACCGGUUCGAAUUGGGAUCGGUCUCUUAAGAGGCAACAAAGUUUG
...((((....)))).....(((.(((......))).)))..(((((.(((((((((..........)))))))))(((((....)))))...)))))... ( -28.80)
>consensus
CAAAGGGAAUACCCUAACUUCACGCCAAUUCGUUGCAGUGCUACUUUACGAUCCCAACCGGUUCCAAUUGGGAUCGGUCUCUUAAGAUGCAACAAAGUUUG
...((((....))))................((((((...........(((((((((..........)))))))))...........))))))........ (-25.27 = -25.51 +   0.24)

alignment

secondary structure

dotplot

Window 0

Location	14,549,688 – 14,549,789
Length	101
Sequences	5
Columns	101
Reading direction	reverse
Mean pairwise identity	96.83
Mean single sequence MFE	-31.12
Consensus MFE	-28.26
Energy contribution	-28.34
Covariance contribution	0.08
Combinations/Pair	1.06
Mean z-score	-1.85
Structure conservation index	0.91
SVM decision value	2.08
SVM RNA-class probability	0.987365
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14549688 101 - 22224390
CAAACUUUGUUGCAUCUUAAGAGACCGAUCCCAAUUUGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGUGAAGUUAGGGUAUUCCCUUUG
.....((((((((((((....))).(((((((((((......)))))))))))...........))))))))).((((.....))))(((....))).... ( -30.20)
>DroSec_CAF1 25475 101 - 1
CAAACUUUGUUGCAUCUUAAGAGACCGAUCCCAAUUGGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGUGAAGUUAGGGUAUUCCCUUUG
.....((((((((((((....))).((((((((((((....))))))))))))...........))))))))).((((.....))))(((....))).... ( -34.20)
>DroSim_CAF1 26222 101 - 1
CAAACUUUGUUGCAUCUUAAGAGACCGAUCCCAAUUGGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGUGAAGUUAGGGUAUUCCCUUUG
.....((((((((((((....))).((((((((((((....))))))))))))...........))))))))).((((.....))))(((....))).... ( -34.20)
>DroEre_CAF1 20678 101 - 1
CAAACUUUGUUGCAUCUUAAGCGGCCGAUCCCAAUUCGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGUGAAGUUAGGGUAUUCCCUUUG
.....(((((((((......((...(((((((((((......)))))))))))....)).....))))))))).((((.....))))(((....))).... ( -30.40)
>DroYak_CAF1 23314 101 - 1
CAAACUUUGUUGCCUCUUAAGAGACCGAUCCCAAUUCGAACCGGUUAGGAUCGUAAAGUAGCACUGCAGCGAAUUGCCGUGAAGUUAGGGUAUUCCCUUUG
..((((((((((((((....)))..((((((.((((......)))).))))))....)))))((.((((....)))).))))))))((((....))))... ( -26.60)
>consensus
CAAACUUUGUUGCAUCUUAAGAGACCGAUCCCAAUUCGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGUGAAGUUAGGGUAUUCCCUUUG
..(((((((((((.(((....))).(((((((((((......)))))))))))....)))))......(((......)))))))))((((....))))... (-28.26 = -28.34 +   0.08)

alignment

secondary structure

dotplot

Window 1

Location	14,549,709 – 14,549,818
Length	109
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	93.12
Mean single sequence MFE	-31.88
Consensus MFE	-26.97
Energy contribution	-27.41
Covariance contribution	0.44
Combinations/Pair	1.04
Mean z-score	-1.99
Structure conservation index	0.85
SVM decision value	1.90
SVM RNA-class probability	0.981775
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14549709 109 - 22224390
UUUUUAAGCCU---GUC--AAGGCACUCAUAUUUCAAACUUUGUUGCAUCUUAAGAGACCGAUCCCAAUUUGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGU
.......((((---...--.)))).........((((..((((((((((((....))).(((((((((((......)))))))))))...........)))))))))))))... ( -32.40)
>DroSec_CAF1 25496 112 - 1
UUUUUAAGCCUGCUGUC--AAGGCACCCAUAUUUCAAACUUUGUUGCAUCUUAAGAGACCGAUCCCAAUUGGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGU
.......(((((((...--..))))..............((((((((((((....))).((((((((((((....))))))))))))...........)))))))))..))).. ( -37.30)
>DroSim_CAF1 26243 112 - 1
UUUUUAAGCCUGCUGUC--AAGGCACCCAUAUUUCAAACUUUGUUGCAUCUUAAGAGACCGAUCCCAAUUGGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGU
.......(((((((...--..))))..............((((((((((((....))).((((((((((((....))))))))))))...........)))))))))..))).. ( -37.30)
>DroEre_CAF1 20699 109 - 1
UUUUUAAGCCU---GUC--AAGGCCCCCAUAUAUCAAACUUUGUUGCAUCUUAAGCGGCCGAUCCCAAUUCGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGU
.......((((---...--.)))).........((((..(((((((((......((...(((((((((((......)))))))))))....)).....)))))))))))))... ( -31.80)
>DroYak_CAF1 23335 111 - 1
UUUUUAAGCCU---GUCACAAGUCGCCCAUAUUUCAAACUUUGUUGCCUCUUAAGAGACCGAUCCCAAUUCGAACCGGUUAGGAUCGUAAAGUAGCACUGCAGCGAAUUGCCGU
...........---....(((.((((...........((((((....(((....)))..((((((.((((......)))).)))))))))))).((...)).)))).))).... ( -20.60)
>consensus
UUUUUAAGCCU___GUC__AAGGCACCCAUAUUUCAAACUUUGUUGCAUCUUAAGAGACCGAUCCCAAUUCGAACCGGUUGGGAUCGUAAAGUAGCACUGCAACGAAUUGGCGU
.......((((.........))))..........(((..(((((((((...........(((((((((((......)))))))))))...........)))))))))))).... (-26.97 = -27.41 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:47 2006