Locus 5753

Sequence ID	3L_DroMel_CAF1
Location	15,629,712 – 15,629,866
Length	154
Max. P	0.706447

overview

Window 8

Location	15,629,712 – 15,629,826
Length	114
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	93.02
Mean single sequence MFE	-32.73
Consensus MFE	-26.70
Energy contribution	-27.58
Covariance contribution	0.88
Combinations/Pair	1.08
Mean z-score	-1.81
Structure conservation index	0.82
SVM decision value	0.36
SVM RNA-class probability	0.706447
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15629712 114 - 23771897
AGCAGGAUGAGUCAUCCCCUUUCUGUUGCGUCCGGGGGCAACCCUCGGUGGCAAGUGGAAAAAGGUUGCAACACGAAACCUAAA------CCGAAAAACUCAAAAAAGCAUCGCAACCCC
....(((((...)))))..((((((((((..((((((....))).)))..)))).))))))..((((((....((.........------.)).....((......))....)))))).. ( -31.70)
>DroSec_CAF1 51946 114 - 1
AGCAGGAUGAGUCAUCCCCUUUCUCUUGCGUCCGGGGGCAACCCUCGGUGGCAAGUGGAAAAAGGUUGCAACACGAAACCUAAA------CCGAAAAACUCAAAAAAGCAUCGCAACCCC
....(((((...)))))..((((.(((((..((((((....))).)))..))))).))))...((((((....((.........------.)).....((......))....)))))).. ( -34.20)
>DroSim_CAF1 52949 114 - 1
AGCAGGAUGAGUCAUCCCCUUUCUCUUGCGUCCGGGGGCAACCCUCGGUGGCAAGAGGAAAAAGGUUGCAACACGAAACCUAAA------CCGAAAAACUCAAAAAAGCAUCGCAACCCC
....(((((...)))))..((((((((((..((((((....))).)))..))))))))))...((((((....((.........------.)).....((......))....)))))).. ( -38.40)
>DroYak_CAF1 56498 119 - 1
AGCAGGAUGAGUCACCCCCUUUGUGUUGUGUCUG-GGGCAACCCUCGGUGGCAAGUGGAAAAAGGUUGCAACACGAAACCUAAACCCAAACCGAAAACCCAAAAAAAGCAUCGCAACCCC
...(((...........)))(((((.(((....(-((....)))(((((......(((....(((((.........)))))....))).))))).............))).))))).... ( -26.60)
>consensus
AGCAGGAUGAGUCAUCCCCUUUCUCUUGCGUCCGGGGGCAACCCUCGGUGGCAAGUGGAAAAAGGUUGCAACACGAAACCUAAA______CCGAAAAACUCAAAAAAGCAUCGCAACCCC
....(((((...)))))..((((.(((((..((((((....))).)))..))))).))))...((((((...........................................)))))).. (-26.70 = -27.58 +   0.88)

alignment

secondary structure

dotplot

Window 9

Location	15,629,746 – 15,629,866
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	96.53
Mean single sequence MFE	-38.73
Consensus MFE	-34.33
Energy contribution	-35.20
Covariance contribution	0.87
Combinations/Pair	1.05
Mean z-score	-1.61
Structure conservation index	0.89
SVM decision value	-0.03
SVM RNA-class probability	0.517296
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 15629746 120 - 23771897
AAUUUUUUCUGUUUAAUAGCAAAGGACAAGUGCAGCCAGGAGCAGGAUGAGUCAUCCCCUUUCUGUUGCGUCCGGGGGCAACCCUCGGUGGCAAGUGGAAAAAGGUUGCAACACGAAACC
...((((((..(((..((.(...((((....(((((.(((((..(((((...)))))..))))))))))))))((((....)))).).))..)))..))))))((((.........)))) ( -38.70)
>DroSec_CAF1 51980 120 - 1
AAUUUUUUCUGUUUAAUAGCAAAGGACAAGUGCAGCCAGGAGCAGGAUGAGUCAUCCCCUUUCUCUUGCGUCCGGGGGCAACCCUCGGUGGCAAGUGGAAAAAGGUUGCAACACGAAACC
.....((((((((....)))).........(((((((.((....(((((...)))))))((((.(((((..((((((....))).)))..))))).))))...)))))))....)))).. ( -41.10)
>DroSim_CAF1 52983 120 - 1
AAUUUUUUCUGUUUAAUAGCAAAGGACAAGUGCAGCCAGGAGCAGGAUGAGUCAUCCCCUUUCUCUUGCGUCCGGGGGCAACCCUCGGUGGCAAGAGGAAAAAGGUUGCAACACGAAACC
.....((((((((....)))).........(((((((.((....(((((...)))))))((((((((((..((((((....))).)))..))))))))))...)))))))....)))).. ( -45.30)
>DroYak_CAF1 56538 118 - 1
AAUU-UUUCUGUUUAAUAGCAAAGGACAAGUGCAGCCAGGAGCAGGAUGAGUCACCCCCUUUGUGUUGUGUCUG-GGGCAACCCUCGGUGGCAAGUGGAAAAAGGUUGCAACACGAAACC
..((-((((((((....)))).....((..(((.(((((..((((.(..((........))..).))))..))(-((....)))..))).)))..))))))))((((.........)))) ( -29.80)
>consensus
AAUUUUUUCUGUUUAAUAGCAAAGGACAAGUGCAGCCAGGAGCAGGAUGAGUCAUCCCCUUUCUCUUGCGUCCGGGGGCAACCCUCGGUGGCAAGUGGAAAAAGGUUGCAACACGAAACC
.....((((((((....)))).........(((((((.((....(((((...)))))))((((.(((((..((((((....))).)))..))))).))))...)))))))....)))).. (-34.33 = -35.20 +   0.87)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:58:52 2006