Locus 7308

Sequence ID	3L_DroMel_CAF1
Location	19,570,202 – 19,570,309
Length	107
Max. P	0.997988

overview

Window 5

Location	19,570,202 – 19,570,309
Length	107
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	81.55
Mean single sequence MFE	-37.13
Consensus MFE	-25.36
Energy contribution	-25.84
Covariance contribution	0.48
Combinations/Pair	1.08
Mean z-score	-3.47
Structure conservation index	0.68
SVM decision value	2.98
SVM RNA-class probability	0.997988
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19570202 107 + 23771897
CCGCCAUCAAAGACACACACUUUGUGUAGCACUAAAAGGAUAAAGGAUUCAA-------------ACACUGGUGCCUGCAAAAUGAAAGCGGCAUUCACCAUAAGAUCCUGCGAUGGCGG
((((((((....(((((.....))))).((.((....))....((((((...-------------.....((((((.((.........))))))))........)))))))))))))))) ( -34.29)
>DroSec_CAF1 13656 107 + 1
CCGCCAUCAAGGACACGCACUUUGUGUAGCACUAAAAGGAUAAAGGAUUAAA-------------ACACUGGUGCCUACAAAAUGAAAGUGGCACUCACCAUGAGAUCCUGCGAUGGCGG
((((((((.(((((((.((.((((((..((((((..................-------------....)))))).)))))).))...)))...(((.....))).))))..)))))))) ( -36.15)
>DroSim_CAF1 14648 107 + 1
CCGCCAUCAAGGACACACACUUUGUGUAGCACUAAAAGGAUAAAGGAUUCAA-------------ACACUGGUGCCUGCGAAAUGAAAGUGGCACUCACCAUGAGAUCCUGCGAUGGCGG
((((((((.((((....((((((.((((((((((....((........))..-------------....))))).))))).....))))))...(((.....))).))))..)))))))) ( -36.90)
>DroEre_CAF1 16096 119 + 1
CCGCCAUCAAGGACACACACUUUGUGUAGCACUAACGGGAAAAAGGAUUCAAUUAAAGGCAGCUGUCACUGUUGCCUAA-AAACGCGAGCCGCACUCACCAUAAGAUCCUGUGAUGGCGG
((((((((.((..(((((.....)))).)..)).((((((....((..........(((((((.......)))))))..-....(((...))).....))......)))))))))))))) ( -40.20)
>DroYak_CAF1 14032 118 + 1
CCGCCAUCAAGGACACACACUUUGUGUAGCACUAAA-AAAAGAAGGAUUUUAUUAAAAGCAGCUAUAACUGUUGCCUAG-AAAAGCGAACCGCACUCACCAUGAGAUCCUGCGAUGGCGG
((((((((....(((((.....))))).((.((...-...)).((((((((((.....(((((.......)))))....-....(((...))).......)))))))))))))))))))) ( -38.10)
>consensus
CCGCCAUCAAGGACACACACUUUGUGUAGCACUAAAAGGAUAAAGGAUUCAA_____________ACACUGGUGCCUAC_AAAUGAAAGCGGCACUCACCAUGAGAUCCUGCGAUGGCGG
((((((((....(((((.....)))))................(((((........................((((..............))))(((.....))))))))..)))))))) (-25.36 = -25.84 +   0.48)

alignment

secondary structure

dotplot

Window 6

Location	19,570,202 – 19,570,309
Length	107
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	81.55
Mean single sequence MFE	-37.08
Consensus MFE	-27.92
Energy contribution	-27.56
Covariance contribution	-0.36
Combinations/Pair	1.17
Mean z-score	-2.42
Structure conservation index	0.75
SVM decision value	1.76
SVM RNA-class probability	0.975782
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19570202 107 - 23771897
CCGCCAUCGCAGGAUCUUAUGGUGAAUGCCGCUUUCAUUUUGCAGGCACCAGUGU-------------UUGAAUCCUUUAUCCUUUUAGUGCUACACAAAGUGUGUGUCUUUGAUGGCGG
((((((((((((((((...(((((..(((............)))..)))))....-------------..).)))).(((......))))))(((((.....))))).....)))))))) ( -33.60)
>DroSec_CAF1 13656 107 - 1
CCGCCAUCGCAGGAUCUCAUGGUGAGUGCCACUUUCAUUUUGUAGGCACCAGUGU-------------UUUAAUCCUUUAUCCUUUUAGUGCUACACAAAGUGCGUGUCCUUGAUGGCGG
(((((((((.(((((..(.((((....))))....((((((((.(((((.((...-------------..(((....))).....)).)))))..)))))))).).)))))))))))))) ( -36.20)
>DroSim_CAF1 14648 107 - 1
CCGCCAUCGCAGGAUCUCAUGGUGAGUGCCACUUUCAUUUCGCAGGCACCAGUGU-------------UUGAAUCCUUUAUCCUUUUAGUGCUACACAAAGUGUGUGUCCUUGAUGGCGG
(((((((((.((((((.(((..((.(((.((((.........((((((....)))-------------)))................)))).))).))..))).).)))))))))))))) ( -35.61)
>DroEre_CAF1 16096 119 - 1
CCGCCAUCACAGGAUCUUAUGGUGAGUGCGGCUCGCGUUU-UUAGGCAACAGUGACAGCUGCCUUUAAUUGAAUCCUUUUUCCCGUUAGUGCUACACAAAGUGUGUGUCCUUGAUGGCGG
(((((((((.(((((..(((.(((((..((((..(((((.-...(....)...))).)).)))..((((.(((......)))..)))))..)).)))...)))...)))))))))))))) ( -40.50)
>DroYak_CAF1 14032 118 - 1
CCGCCAUCGCAGGAUCUCAUGGUGAGUGCGGUUCGCUUUU-CUAGGCAACAGUUAUAGCUGCUUUUAAUAAAAUCCUUCUUUU-UUUAGUGCUACACAAAGUGUGUGUCCUUGAUGGCGG
(((((((((.((((((.(((.(((((..(.....((((..-..))))..((((....))))......................-....)..)).)))...))).).)))))))))))))) ( -39.50)
>consensus
CCGCCAUCGCAGGAUCUCAUGGUGAGUGCCGCUUUCAUUU_GUAGGCACCAGUGU_____________UUGAAUCCUUUAUCCUUUUAGUGCUACACAAAGUGUGUGUCCUUGAUGGCGG
(((((((((.((((((.(((..((.(((.((((..........(((............................)))..........)))).))).))..))).).)))))))))))))) (-27.92 = -27.56 +  -0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:43:39 2006