Locus 7066

Sequence ID	X_DroMel_CAF1
Location	17,719,480 – 17,719,599
Length	119
Max. P	0.999813

overview

Window 1

Location	17,719,480 – 17,719,599
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	93.17
Mean single sequence MFE	-33.27
Consensus MFE	-31.42
Energy contribution	-30.70
Covariance contribution	-0.72
Combinations/Pair	1.18
Mean z-score	-1.64
Structure conservation index	0.94
SVM decision value	2.21
SVM RNA-class probability	0.990321
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17719480 119 + 22224390
AGUGUGGAAAAGCCAUCUUGUCCAGCGGAAGAACGAAUGAA-AAUCACAGCUGCCAAUGCGAGGCUGCCAGCUGUUUGGAUUUUUCCUCCUUUUCCCUUAUGUAUUUGUUUUUUGGAAAA
....((((.(((....))).)))).(.((((((((((((..-....(((((((.((..((...)))).)))))))..(((....)))...............)))))))))))).).... ( -28.00)
>DroSec_CAF1 23815 120 + 1
AGUGUGGAAAACCCAUCUUGUCCAGCGGAAGAACGAAGGAAAAAUCACAGCUGCCAAUGCGAUGCUGCCAGCUGUUUGGAUUUUUCCUCCUUUUCCCUUUUGUAUUCGUUUUUCGGAAAA
...((((.....)))).........(.((((((((((((((((((((((((((.((..((...)))).)))))))...)))))))))).................))))))))).).... ( -33.12)
>DroSim_CAF1 25904 120 + 1
AGUGUGGAAAACCCAUCUUGUCCAGCGGAAGAACGAAGGAAAAAUCACAGCUGCCAAUGCGAUGCUGCCAGCUGUUUGGAUUUUUCCUCCUUUUCCCUUUUGUAUUCGUUUUUCGGAAAA
...((((.....)))).........(.((((((((((((((((((((((((((.((..((...)))).)))))))...)))))))))).................))))))))).).... ( -33.12)
>DroEre_CAF1 24968 119 + 1
AGGGUGGAAAACCCACUUU-UUCAACGGAAAAACGAAGGAAAAAUCACAGCUGCCAAUGCGAUACUGCCAGCUGUUUGGAUUUUUCCUCAUUUUCCCUUUUGUAUUUGUUUUUCGGAAAA
.((((.....)))).....-.....(.((((((((((((((((((((((((((.((.........)).)))))))...))))))))).((..........))..)))))))))).).... ( -35.00)
>DroYak_CAF1 25004 120 + 1
AGAGUGGAAAACCCAUGUUGUCCAGCGGAAAAGCGAAGGGAAAAUCACAGCUGCCAAUGCGAUGCUGCCAGCUGUUUGGAUUUUUCCUCCUUUUCCCUUUUGUAUUCGUUUUUCGGAAAA
....((((.(((....))).))))..(((((((.((.((((((((((((((((.((..((...)))).)))))))...))))))))))))))))))........((((.....))))... ( -37.10)
>consensus
AGUGUGGAAAACCCAUCUUGUCCAGCGGAAGAACGAAGGAAAAAUCACAGCUGCCAAUGCGAUGCUGCCAGCUGUUUGGAUUUUUCCUCCUUUUCCCUUUUGUAUUCGUUUUUCGGAAAA
...((((.....)))).........(.((((((((((((((((((((((((((.((.........)).)))))))...)))))))))).................))))))))).).... (-31.42 = -30.70 +  -0.72)

alignment

secondary structure

dotplot

Window 2

Location	17,719,480 – 17,719,599
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	93.17
Mean single sequence MFE	-37.26
Consensus MFE	-32.38
Energy contribution	-33.14
Covariance contribution	0.76
Combinations/Pair	1.03
Mean z-score	-3.18
Structure conservation index	0.87
SVM decision value	4.14
SVM RNA-class probability	0.999813
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17719480 119 - 22224390
UUUUCCAAAAAACAAAUACAUAAGGGAAAAGGAGGAAAAAUCCAAACAGCUGGCAGCCUCGCAUUGGCAGCUGUGAUU-UUCAUUCGUUCUUCCGCUGGACAAGAUGGCUUUUCCACACU
........................((((((((((..((((((...(((((((.(((.......))).)))))))))))-))..)))((((.......)))).......)))))))..... ( -31.30)
>DroSec_CAF1 23815 120 - 1
UUUUCCGAAAAACGAAUACAAAAGGGAAAAGGAGGAAAAAUCCAAACAGCUGGCAGCAUCGCAUUGGCAGCUGUGAUUUUUCCUUCGUUCUUCCGCUGGACAAGAUGGGUUUUCCACACU
........................((((((((((((((((((...(((((((.(((.......))).)))))))))))))))))))((((.......))))........))))))..... ( -38.00)
>DroSim_CAF1 25904 120 - 1
UUUUCCGAAAAACGAAUACAAAAGGGAAAAGGAGGAAAAAUCCAAACAGCUGGCAGCAUCGCAUUGGCAGCUGUGAUUUUUCCUUCGUUCUUCCGCUGGACAAGAUGGGUUUUCCACACU
........................((((((((((((((((((...(((((((.(((.......))).)))))))))))))))))))((((.......))))........))))))..... ( -38.00)
>DroEre_CAF1 24968 119 - 1
UUUUCCGAAAAACAAAUACAAAAGGGAAAAUGAGGAAAAAUCCAAACAGCUGGCAGUAUCGCAUUGGCAGCUGUGAUUUUUCCUUCGUUUUUCCGUUGAA-AAAGUGGGUUUUCCACCCU
..................(((..(((((((((((((((((((...(((((((.((((.....)))).)))))))))))))))).)))))))))).)))..-.....((((.....)))). ( -42.90)
>DroYak_CAF1 25004 120 - 1
UUUUCCGAAAAACGAAUACAAAAGGGAAAAGGAGGAAAAAUCCAAACAGCUGGCAGCAUCGCAUUGGCAGCUGUGAUUUUCCCUUCGCUUUUCCGCUGGACAACAUGGGUUUUCCACUCU
.......................((((((.(((((.((((((...(((((((.(((.......))).))))))))))))).)))))..))))))..((((.(((....))).)))).... ( -36.10)
>consensus
UUUUCCGAAAAACGAAUACAAAAGGGAAAAGGAGGAAAAAUCCAAACAGCUGGCAGCAUCGCAUUGGCAGCUGUGAUUUUUCCUUCGUUCUUCCGCUGGACAAGAUGGGUUUUCCACACU
........................((((((((((((((((((...(((((((.(((.......))).)))))))))))))))))))......(((((.....)).))).))))))..... (-32.38 = -33.14 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:29:21 2006