Locus 7664

Sequence ID	3L_DroMel_CAF1
Location	20,572,950 – 20,573,070
Length	120
Max. P	0.745090

overview

Window 5

Location	20,572,950 – 20,573,070
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.42
Mean single sequence MFE	-35.88
Consensus MFE	-27.96
Energy contribution	-28.44
Covariance contribution	0.48
Combinations/Pair	1.08
Mean z-score	-1.68
Structure conservation index	0.78
SVM decision value	0.41
SVM RNA-class probability	0.724339
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20572950 120 + 23771897
UUGGAGCAGGAGCGUCUGGAAUUUGAGAGAAGAACUCUUCAGGAACGCGAAGAGGCCCAGCAGAAGAAACAGCAAGUAAUGCUGGAUGCCAUACAGAAAGCUGAAGUGGCGGCCAAAAUG
((((.((.((.((.(((.(..((((((((.....))).)))))....)..))).)))).))........(((((.....)))))..((((((.(((....)))..)))))).)))).... ( -33.60)
>DroSec_CAF1 17863 120 + 1
UUGGAGCAGGAGCGUCUGGAAUUUGAGAGAAGAACUCUUCUGGAGCGCGAAGAGGCCCAGCAGAAGAAACAGCAAGUAAUGCUGGAUGCCAUACAGAAAGCUGAAGUGGCGGCCAAAAUG
...........(((((..((.....((((.....))))))..)).))).....((((............(((((.....)))))...(((((.(((....)))..)))))))))...... ( -35.40)
>DroAna_CAF1 39519 120 + 1
UUGGAACAGGAGCGUCUGGAAUUCGAGAGGCGACAGCUUUUGGAACGCGAGGAGGCCCAGCAGAAGAAGCAGCAGGUGAUGCUGGAUGCCAUUGCCAAGGCCGAGGUAGCGGCCAAAAUG
((((....((.((.(((.(..(((.((((((....)))))).)))..)..))).))((((((......((.....))..))))))...))....))))(((((......)))))...... ( -41.50)
>DroSim_CAF1 11360 120 + 1
UUGGAGCAGGAGCGUCUGGAAUUUGAGAGAAGAACUCUUCUGGAACGCGAAGAGGCCCAGCAGAAGAAACAGCAAGUAAUGCUGGAUGCCAUACAGAAAGCUGAAGUGGCGGCCAAAAUC
...........(((((..((.....((((.....))))))..).)))).....((((............(((((.....)))))...(((((.(((....)))..)))))))))...... ( -35.40)
>DroEre_CAF1 11091 120 + 1
UUGGAGCAGGAGCGUCUGGAAUUUGAGAGAAGAACUCUUCUGGAACGCGAAGAGGCCCAGCAGAAGAAACAGCAAGUAAUGCUGGAUGCCCUACAUAAAGCUGAAGUGGCGGCCAAAUUG
((((.(((((.((((((((..(((....)))...((((((........))))))..)))..........(((((.....))))))))))))).(((.........)))))..)))).... ( -33.50)
>consensus
UUGGAGCAGGAGCGUCUGGAAUUUGAGAGAAGAACUCUUCUGGAACGCGAAGAGGCCCAGCAGAAGAAACAGCAAGUAAUGCUGGAUGCCAUACAGAAAGCUGAAGUGGCGGCCAAAAUG
...........(((((..((.....((((.....))))))..).)))).....((((............(((((.....)))))...(((((.............)))))))))...... (-27.96 = -28.44 +   0.48)

alignment

secondary structure

dotplot

Window 6

Location	20,572,950 – 20,573,070
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.42
Mean single sequence MFE	-30.66
Consensus MFE	-23.10
Energy contribution	-24.42
Covariance contribution	1.32
Combinations/Pair	1.10
Mean z-score	-1.91
Structure conservation index	0.75
SVM decision value	0.46
SVM RNA-class probability	0.745090
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20572950 120 - 23771897
CAUUUUGGCCGCCACUUCAGCUUUCUGUAUGGCAUCCAGCAUUACUUGCUGUUUCUUCUGCUGGGCCUCUUCGCGUUCCUGAAGAGUUCUUCUCUCAAAUUCCAGACGCUCCUGCUCCAA
......((((((((...(((....)))..))))...(((((.....)))))............)))).....(((((..(((.(((.....)))))).......)))))........... ( -29.70)
>DroSec_CAF1 17863 120 - 1
CAUUUUGGCCGCCACUUCAGCUUUCUGUAUGGCAUCCAGCAUUACUUGCUGUUUCUUCUGCUGGGCCUCUUCGCGCUCCAGAAGAGUUCUUCUCUCAAAUUCCAGACGCUCCUGCUCCAA
...(((((..((((...(((....)))..))))...(((((.....))))).((((((((..(.((......)).)..))))))))...............))))).((....))..... ( -31.20)
>DroAna_CAF1 39519 120 - 1
CAUUUUGGCCGCUACCUCGGCCUUGGCAAUGGCAUCCAGCAUCACCUGCUGCUUCUUCUGCUGGGCCUCCUCGCGUUCCAAAAGCUGUCGCCUCUCGAAUUCCAGACGCUCCUGUUCCAA
..((((((.(((......(((((.((((..((.(..(((((.....)))))..)))..))))))))).....)))..))))))((.(..((.(((.(....).))).))..).))..... ( -31.30)
>DroSim_CAF1 11360 120 - 1
GAUUUUGGCCGCCACUUCAGCUUUCUGUAUGGCAUCCAGCAUUACUUGCUGUUUCUUCUGCUGGGCCUCUUCGCGUUCCAGAAGAGUUCUUCUCUCAAAUUCCAGACGCUCCUGCUCCAA
((....((((((((...(((....)))..))))...(((((.....)))))............))))...))(((((...((((((.....)))).....))..)))))........... ( -30.60)
>DroEre_CAF1 11091 120 - 1
CAAUUUGGCCGCCACUUCAGCUUUAUGUAGGGCAUCCAGCAUUACUUGCUGUUUCUUCUGCUGGGCCUCUUCGCGUUCCAGAAGAGUUCUUCUCUCAAAUUCCAGACGCUCCUGCUCCAA
....((((..((.......)).....(((((((.(((((((.....))))).((((((((..(.((......)).)..))))))))..................)).)).))))).)))) ( -30.50)
>consensus
CAUUUUGGCCGCCACUUCAGCUUUCUGUAUGGCAUCCAGCAUUACUUGCUGUUUCUUCUGCUGGGCCUCUUCGCGUUCCAGAAGAGUUCUUCUCUCAAAUUCCAGACGCUCCUGCUCCAA
...(((((..((((...(((....)))..))))...(((((.....))))).((((((((..(.((......)).)..))))))))...............))))).((....))..... (-23.10 = -24.42 +   1.32)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:53:08 2006