Locus 390

Sequence ID	2R_DroMel_CAF1
Location	2,366,206 – 2,366,325
Length	119
Max. P	0.994006

overview

Window 7

Location	2,366,206 – 2,366,325
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	95.72
Mean single sequence MFE	-32.62
Consensus MFE	-27.30
Energy contribution	-27.54
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-2.57
Structure conservation index	0.84
SVM decision value	2.44
SVM RNA-class probability	0.994006
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2366206 119 + 20766785
AUGUCAGCUGUCAUUGGCCAUAAUUUCAGUUUAUUGUUUUGCCAAAAACAAAACCCCGGCCCAGCCGCCUU-UAGCGGAAGGAGCCCUUUUCCGGGCCUGACAAUUCCAUUUACUCAUUU
.(((((..(((..(((((.(((((........)))))...)))))..))).......(((((..((((...-..))))..((((.....))))))))))))))................. ( -34.30)
>DroSec_CAF1 15698 119 + 1
AUGUCAGCUGUCAUUGGCCAUAAUUUCAGUUUAUUGUUUUGCCAAAAACAAAACCCCGGCCGAGCAGCCUU-UAGCGGAAGGAGCCCUUUUCCGGGCCUGACAAUUCCAUUUACUCAUUU
.((((((((((..((((((.(((.......)))(((((((....)))))))......))))))))))((((-(....))))).((((......))))))))))................. ( -33.80)
>DroSim_CAF1 15820 119 + 1
AUGUCAGCUGUCAUUGGCCAUAAUUUCAGUUUAUUGUUUUGCCAAAAACAAAACCCCGGCCCAGCAGCCUU-UAGCGGAAGGAGCCCUUUUCCGGGCCUGACAAUUCCAUUUACUCAUUU
.(((((..(((..(((((.(((((........)))))...)))))..))).......(((((.((......-..))((((((.....))))))))))))))))................. ( -31.50)
>DroEre_CAF1 15290 116 + 1
AUGUCAGCUGUCAUUGGCCAUAAUUUCAGUUUAUUGUUUUGCCAAAAACAAAACCCGGGCCCAGU---CUU-CAGCGGAAGGAGCCCUUUUCCGGGCCUGACAAUUCCAUUUACUCAUUU
.(((((((((..((((....))))..)))))..(((((((....))))))).....((((((.((---...-..))((((((.....))))))))))))))))................. ( -29.60)
>DroYak_CAF1 15072 117 + 1
AUGUCAGCUGUCAUUGGCCAUAAUUUCAGUUUAUUGUUUUGCCAAAAACAAAACCCAAGCCCAGC---CUUUUGGCGGAAGGAGCCCUUUUCCGGGCCUGACAAUUCCAUUUACUCAUUU
.((((((.(((..(((((.(((((........)))))...)))))..)))........((((.((---(....)))((((((.....))))))))))))))))................. ( -33.90)
>consensus
AUGUCAGCUGUCAUUGGCCAUAAUUUCAGUUUAUUGUUUUGCCAAAAACAAAACCCCGGCCCAGC_GCCUU_UAGCGGAAGGAGCCCUUUUCCGGGCCUGACAAUUCCAUUUACUCAUUU
.(((((..(((..(((((.(((((........)))))...)))))..))).......(((((.((.........))((((((.....))))))))))))))))................. (-27.30 = -27.54 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	2,366,206 – 2,366,325
Length	119
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	95.72
Mean single sequence MFE	-35.46
Consensus MFE	-30.22
Energy contribution	-30.46
Covariance contribution	0.24
Combinations/Pair	1.04
Mean z-score	-1.93
Structure conservation index	0.85
SVM decision value	1.62
SVM RNA-class probability	0.968373
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2366206 119 - 20766785
AAAUGAGUAAAUGGAAUUGUCAGGCCCGGAAAAGGGCUCCUUCCGCUA-AAGGCGGCUGGGCCGGGGUUUUGUUUUUGGCAAAACAAUAAACUGAAAUUAUGGCCAAUGACAGCUGACAU
.................((((((((((......))))..(..((((..-...))))..)(((((..((((((((((((......))).)))).)))))..)))))........)))))). ( -38.10)
>DroSec_CAF1 15698 119 - 1
AAAUGAGUAAAUGGAAUUGUCAGGCCCGGAAAAGGGCUCCUUCCGCUA-AAGGCUGCUCGGCCGGGGUUUUGUUUUUGGCAAAACAAUAAACUGAAAUUAUGGCCAAUGACAGCUGACAU
.................((((((.(((((....((((.((((......-))))..))))..)))))...(((((.(((((......((((.......)))).))))).))))))))))). ( -36.60)
>DroSim_CAF1 15820 119 - 1
AAAUGAGUAAAUGGAAUUGUCAGGCCCGGAAAAGGGCUCCUUCCGCUA-AAGGCUGCUGGGCCGGGGUUUUGUUUUUGGCAAAACAAUAAACUGAAAUUAUGGCCAAUGACAGCUGACAU
.................((((.(((((......)))))..........-..((((((..(((((..((((((((((((......))).)))).)))))..)))))...).))))))))). ( -36.30)
>DroEre_CAF1 15290 116 - 1
AAAUGAGUAAAUGGAAUUGUCAGGCCCGGAAAAGGGCUCCUUCCGCUG-AAG---ACUGGGCCCGGGUUUUGUUUUUGGCAAAACAAUAAACUGAAAUUAUGGCCAAUGACAGCUGACAU
..........(((..(((((((((((.......((((((((((....)-)))---...))))))..(((((((.....)))))))................))))..)))))).)..))) ( -32.90)
>DroYak_CAF1 15072 117 - 1
AAAUGAGUAAAUGGAAUUGUCAGGCCCGGAAAAGGGCUCCUUCCGCCAAAAG---GCUGGGCUUGGGUUUUGUUUUUGGCAAAACAAUAAACUGAAAUUAUGGCCAAUGACAGCUGACAU
......((...((..((((((((((((((.....(((.......))).....---.))))))))))(((((((.....)))))))...................))))..))....)).. ( -33.40)
>consensus
AAAUGAGUAAAUGGAAUUGUCAGGCCCGGAAAAGGGCUCCUUCCGCUA_AAGGC_GCUGGGCCGGGGUUUUGUUUUUGGCAAAACAAUAAACUGAAAUUAUGGCCAAUGACAGCUGACAU
.................((((((((((......))))......................(((((.(((((((((((((......))).)))).)))))).)))))........)))))). (-30.22 = -30.46 +   0.24)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:37:20 2006