Locus 2860

Sequence ID	X_DroMel_CAF1
Location	7,635,841 – 7,635,944
Length	103
Max. P	0.994414

overview

Window 9

Location	7,635,841 – 7,635,944
Length	103
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	69.25
Mean single sequence MFE	-22.30
Consensus MFE	-14.18
Energy contribution	-12.42
Covariance contribution	-1.76
Combinations/Pair	1.35
Mean z-score	-1.92
Structure conservation index	0.64
SVM decision value	1.90
SVM RNA-class probability	0.982042
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7635841 103 + 22224390
GCACAUUCCCAUACGCGUACGUGUGGGUA--UAUGCAUAUUUUCAUGAUUUCCCAUGCUUUUAUGCGGCAUACGAGGAAUGUUUUUGCAGCGUUUUUUUUU--------UUUU
(((((((((((((((....)))))).(((--(.((((((....((((......))))....))))))..))))..)))))))....)).............--------.... ( -28.20)
>DroPse_CAF1 85511 86 + 1
AUA-GUUUAUACAUGCAUAUGU----ACA--UAUGUAUAUUUAUGUGAUUUUUCAUGUUUUUAUAUGGCGAACGAAAAAUGUUUAUGCAGCGU--------------------
...-.........((((((...----.((--((((......))))))(((((((.((((.......))))...)))))))...))))))....-------------------- ( -13.80)
>DroEre_CAF1 57836 104 + 1
GCACAUUCCCAUACGCGUACAUGUGGGUA--UAUGCAUAUUUUCAUGAUUUUCCAUGCUUUUAUGCGGCAUGCGAGAAAUGUUUUUGCAGCGUUUUUU-------GCUCCUUU
((.....((((((........))))))..--..((((((....((((......))))....))))))))..((((((((((((.....))))))))))-------))...... ( -28.90)
>DroYak_CAF1 55110 112 + 1
GCACAUUCACAUACGCGUACGUGUGUGUAUAUAUGCAUAUUUUCAUGAUUUUCCAUGCUUUUAUGCGGCAUACGAGAAAUGUUUUUGCAGCGUUCUUUUUUUGUUGGUC-UUU
((......((((((((....)))))))).....((((((....((((......))))....))))))))....(((((.(((....)))...)))))............-... ( -25.40)
>DroPer_CAF1 69715 82 + 1
AUA-GUUUAUACAUGCAUAUGU----------AUGUAUAUUUAUAUGAUUUUUCAUGUUUUUAUAUGGCGAACGAAAAAUGUUUCUGCAGCGU--------------------
...-...(((((((((....))----------)))))))...((((((....)))))).........((....((((....))))....))..-------------------- ( -15.20)
>consensus
GCACAUUCACAUACGCGUACGUGUG_GUA__UAUGCAUAUUUUCAUGAUUUUCCAUGCUUUUAUGCGGCAUACGAGAAAUGUUUUUGCAGCGUU_UUU____________UUU
............((((.................((((((....((((......))))....))))))(((.(((.....)))...))).)))).................... (-14.18 = -12.42 +  -1.76)

alignment

secondary structure

dotplot

Window 0

Location	7,635,841 – 7,635,944
Length	103
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	69.25
Mean single sequence MFE	-18.92
Consensus MFE	-6.69
Energy contribution	-7.37
Covariance contribution	0.68
Combinations/Pair	1.12
Mean z-score	-2.52
Structure conservation index	0.35
SVM decision value	2.48
SVM RNA-class probability	0.994414
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7635841 103 - 22224390
AAAA--------AAAAAAAAACGCUGCAAAAACAUUCCUCGUAUGCCGCAUAAAAGCAUGGGAAAUCAUGAAAAUAUGCAUA--UACCCACACGUACGCGUAUGGGAAUGUGC
....--------...................(((((((.(((((((.(((((....(((((....)))))....)))))...--(((......))).)))))))))))))).. ( -28.20)
>DroPse_CAF1 85511 86 - 1
--------------------ACGCUGCAUAAACAUUUUUCGUUCGCCAUAUAAAAACAUGAAAAAUCACAUAAAUAUACAUA--UGU----ACAUAUGCAUGUAUAAAC-UAU
--------------------(((.((((((...(((((((((...............))))))))).(((((........))--)))----...)))))))))......-... ( -12.26)
>DroEre_CAF1 57836 104 - 1
AAAGGAGC-------AAAAAACGCUGCAAAAACAUUUCUCGCAUGCCGCAUAAAAGCAUGGAAAAUCAUGAAAAUAUGCAUA--UACCCACAUGUACGCGUAUGGGAAUGUGC
...(.(((-------.......))).)............(((((...(((((....((((......))))....)))))...--..((((.(((....))).)))).))))). ( -24.60)
>DroYak_CAF1 55110 112 - 1
AAA-GACCAACAAAAAAAGAACGCUGCAAAAACAUUUCUCGUAUGCCGCAUAAAAGCAUGGAAAAUCAUGAAAAUAUGCAUAUAUACACACACGUACGCGUAUGUGAAUGUGC
...-...........................((((((..(((((((.(((((....((((......))))....))))).....(((......))).))))))).)))))).. ( -21.80)
>DroPer_CAF1 69715 82 - 1
--------------------ACGCUGCAGAAACAUUUUUCGUUCGCCAUAUAAAAACAUGAAAAAUCAUAUAAAUAUACAU----------ACAUAUGCAUGUAUAAAC-UAU
--------------------.............(((((((((...............)))))))))........(((((((----------.(....).)))))))...-... (  -7.76)
>consensus
AAA____________AAA_AACGCUGCAAAAACAUUUCUCGUAUGCCGCAUAAAAGCAUGGAAAAUCAUGAAAAUAUGCAUA__UAC_CACACGUACGCGUAUGUGAAUGUGC
....................((((.((.................)).(((((....(((((....)))))....)))))..................))))............ ( -6.69 =  -7.37 +   0.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:45:15 2006