Locus 8630

Sequence ID	3L_DroMel_CAF1
Location	22,432,156 – 22,432,346
Length	190
Max. P	0.824187

overview

Window 0

Location	22,432,156 – 22,432,254
Length	98
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	82.03
Mean single sequence MFE	-24.67
Consensus MFE	-16.64
Energy contribution	-17.03
Covariance contribution	0.39
Combinations/Pair	1.25
Mean z-score	-1.82
Structure conservation index	0.67
SVM decision value	0.28
SVM RNA-class probability	0.667254
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22432156 98 - 23771897
UUCACACUGAAAUAGCGCGAAAUA-------GCAAGAGCAGCUAAUGGCGUGUGAAAAGUAAUGGAAAUCAACCCGGAUUUCUAUAAGUUAUGGUAAGAGUGG-AA
((((((((......(((((...((-------((.......))))....)))))....))).(((((((((......)))))))))..............))))-). ( -24.10)
>DroPse_CAF1 1878 92 - 1
UUGCCACCGCCA----CCGAAAU--------GUACGAGCAGCUAAUGGCGUGUGGAAAUCAAUGAGAGUCGAAGCGGAAUUUUAUAAUUUAUGGCGG-CGCAA-AA
...(((((((((----......(--------((....))).....))))).)))).......((...((((.....(((((....)))))....)))-).)).-.. ( -22.30)
>DroSec_CAF1 4032 98 - 1
UUCACACUGAAAUAGCGCGAAAUA-------GCACGAGCAGCUAAUGGCGUGUGGAAAUUAAUGGAAAUCAACCCGGAUUUCUAUAAGUUACGGUAAAAGUGG-AA
(((((((((.....(((((...((-------((.......))))....)))))...((((.(((((((((......))))))))).)))).))))....))))-). ( -25.00)
>DroSim_CAF1 9007 98 - 1
UUCACACUGAAAUAGCGCGAAAUA-------GCACGAGCAGCUAAUGGCGUGUGGAAAUUAAUGGAAAUCAACCCGGAUUUCUAUAAGUUACGGUAAGAGUGG-AA
(((((((((.....(((((...((-------((.......))))....)))))...((((.(((((((((......))))))))).)))).))))....))))-). ( -25.00)
>DroEre_CAF1 10083 106 - 1
UUCGCACUGAAAUAGCGCGAAAUAGCAAAUAGCAGGAGCAGCUAAUGGCGUGUGGAAAUUAAUGGAAAUCAACACGGAUUUCUGCAAGUUACGGUAAGUUCUAUAA
(((((.(((...))).)))))...((.....)).(((((.(((..((((.((..((((((..((........))..))))))..)).)))).)))..))))).... ( -27.00)
>DroYak_CAF1 45765 99 - 1
UUCACACUGAAAUUGCGCGAAAUA-------GCACGAGCAGCUAAUGGCGUGUGGAAAUUAAUGGAAAUCAACCCGUAUUUCUAUAAGUUACGGUAAGAGUGAAAA
(((((.(((...(((.((......-------)).))).)))....((((.(((((((((..((((........))))))))))))).))))........))))).. ( -24.60)
>consensus
UUCACACUGAAAUAGCGCGAAAUA_______GCACGAGCAGCUAAUGGCGUGUGGAAAUUAAUGGAAAUCAACCCGGAUUUCUAUAAGUUACGGUAAGAGUGA_AA
(((((((........................((....)).((.....)))))))))((((.(((((((((......))))))))).))))................ (-16.64 = -17.03 +   0.39)

alignment

secondary structure

dotplot

Window 1

Location	22,432,254 – 22,432,346
Length	92
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	73.32
Mean single sequence MFE	-39.98
Consensus MFE	-17.71
Energy contribution	-19.22
Covariance contribution	1.50
Combinations/Pair	1.23
Mean z-score	-1.99
Structure conservation index	0.44
SVM decision value	0.69
SVM RNA-class probability	0.824187
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22432254 92 - 23771897
GCACCCUGC--CGACAGAAAGAGGUG-------GGGAUAGCGGUUGCUGUGGUUGCUGGCAGCUUAAGAGUUGUCGGUUAGUUGCCCGAGACCGC---------UUGAGG
...(((..(--(..........))..-------)))..(((((((..((.(((.((((((((((....)))))))))).....))))).))))))---------)..... ( -38.90)
>DroPse_CAF1 1970 102 - 1
GCUUGUGGCACGGUGUGGCUGGGGCG-------GCCACCGAGGCAGCUGCGGUGGCUGGCAGUUUAA-AGUUGUCGGUUAGUUGCCUCAGAUCUCGCCGAGGCGUCGCCG
((.....)).(((((.((((((((((-------(((((((((....)).)))))((((((((.....-..))))))))..)))))))))).)).))))).(((...))). ( -46.50)
>DroSec_CAF1 4130 92 - 1
GCACCCUGC--UGAGAGGCGAAGGUU-------GGGAUAGCGGUAGCUGUGGUUGCUGGCAGCUUAAGAGUUGUCGUUUAGUUGCCCGCGACCGC---------UUGAGG
((.((((((--(....))))......-------)))(((((....)))))((((((.(((((((...((....))....))))))).))))))))---------...... ( -36.90)
>DroSim_CAF1 9105 92 - 1
GCACCCUGC--UGAGGGGCGAAGGUU-------GGGAUAGCGGUAGCUGUGGUUGCUGGCAGCUUAAGAGUUGUCGGUUAGUUGCCCGCGACCGC---------UUGAGG
((.((((..--..)))))).....(.-------.(((((((....)))))((((((.(((((((...((....))....))))))).)))))).)---------)..).. ( -38.00)
>DroEre_CAF1 10189 99 - 1
GCACCCUGC--UGAGGGCAGGAGGUGAGGGGCGGGGAUAGCGGUAGCUGUGGUUGCUGGCAGCUUAAGAGUUGUCGGUUAGCUGACCGCGACCGC---------UUGAGG
((..(((((--.....)))))..))...((((((.....((((((((((.....((((((((((....))))))))))))))).)))))..))))---------)).... ( -46.20)
>DroYak_CAF1 45864 83 - 1
GCACCAUGC--UGAGGGUAGGCGGUG--------GGCUAGCGGUAGCUAUGGCUGCUGGA--------AGUUGUCGGUUAGUUGCCCGCGAGCCC---------UUGAGG
((.....))--.((((((..((((..--------(((((((((((((....)))))).((--------.....)).)))))))..))))..))))---------)).... ( -33.40)
>consensus
GCACCCUGC__UGAGGGGAGGAGGUG_______GGGAUAGCGGUAGCUGUGGUUGCUGGCAGCUUAAGAGUUGUCGGUUAGUUGCCCGCGACCGC_________UUGAGG
.................................((....((((((((((.....((((((((((....)))))))))))))))).))))..))................. (-17.71 = -19.22 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:50 2006