Locus 1279

Sequence ID	X_DroMel_CAF1
Location	3,809,266 – 3,809,386
Length	120
Max. P	0.837944

overview

Window 0

Location	3,809,266 – 3,809,372
Length	106
Sequences	6
Columns	111
Reading direction	reverse
Mean pairwise identity	73.66
Mean single sequence MFE	-37.00
Consensus MFE	-16.61
Energy contribution	-16.67
Covariance contribution	0.06
Combinations/Pair	1.47
Mean z-score	-1.83
Structure conservation index	0.45
SVM decision value	0.20
SVM RNA-class probability	0.631585
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3809266 106 - 22224390
AGCUUCUGAUGCUCACACAGCGCACGGAACAAAAUCGUGCUUUGUUGGAGCAGCGCAAGAGGGAUCUGGCCAAGUCUCUUCUUUCUGUAAAGUCGAAUA--UUGGCCA---
..((((((.(((((..((((.((((((.......)))))).))))..)))))...).))))).....((((((...((..((((....))))..))...--)))))).--- ( -35.80)
>DroVir_CAF1 10291 109 - 1
AGCUGCAAAUGCUUAAUCAGCGCACCGAACAGAAUCGUGCGCUGCUCGAGCAGCGCAAACGUGACAUGGCCAAGUCGCUGCAGUCCGUCAAGACUGGCC--UCCGCCAGAG
.((((((..((((..(.((((((((.((......)))))))))).)..))))........(((((........))))))))))).........(((((.--...))))).. ( -42.80)
>DroGri_CAF1 10230 109 - 1
AACUGCAAAUGCUCAAUCAGCGCACCGAGCAGAAUCGUGCGCUGCUCGAGCAGCGUAAACGGGACAUGGCCAAAUCACUACAGUCCGUCAAAUCGGGUC--UGAGGCAGAG
..((((...(((((...((((((((.((......))))))))))...))))).........((......))......((.(((((((......)))).)--)))))))).. ( -38.50)
>DroEre_CAF1 8149 106 - 1
AGCUUCUGAUGCUCACACAGCGCACGGAACAAAAUCGUGCUUUGUUAGAACAGCGUAAAAGAGAUCUGGCCAAGUCUCUUCUUUCUGUAAAGUCGAAUA--UUGGCCA---
.((((((((((((.....)))((((((.......))))))...))))))..))).............((((((...((..((((....))))..))...--)))))).--- ( -29.00)
>DroMoj_CAF1 6377 109 - 1
AGUUGCAAAUGCUGAACCAGCGCACCGAGCAAAAUCGUGCGCUCCUCGAGCAGCGCAAACGCGACAUGGCCAAAUCGCUGCAGUCGGUGAAAUCGGGCA--UGCGGCAGAG
.((((((..((((((((((((((((.((......)))))))))......((((((.....((......)).....))))))....)))....)).))))--)))))).... ( -38.50)
>DroAna_CAF1 8610 107 - 1
AACUACAGAUGCUCACCCAGCGUACGGAGCAGAAUCGCGCUCUGCUGGAGCAGCGGAAGCGGGAUCUGGCCAAAUCCCUGCUCUCGGUCAAGACCAGCUCCAUGUCC----
........(((((.....))))).((((((........)))))).((((((...(..((((((((........))))).)))..)(((....))).)))))).....---- ( -37.40)
>consensus
AGCUGCAAAUGCUCAAACAGCGCACCGAACAAAAUCGUGCGCUGCUCGAGCAGCGCAAACGGGACAUGGCCAAAUCGCUGCAGUCCGUCAAGUCGAGCA__UUGGCCA___
.........(((((...(((.((((.((......)))))).)))...)))))........(((((........)))))................................. (-16.61 = -16.67 +   0.06)

alignment

secondary structure

dotplot

Window 1

Location	3,809,292 – 3,809,386
Length	94
Sequences	6
Columns	94
Reading direction	reverse
Mean pairwise identity	79.86
Mean single sequence MFE	-33.17
Consensus MFE	-21.84
Energy contribution	-22.73
Covariance contribution	0.89
Combinations/Pair	1.24
Mean z-score	-1.88
Structure conservation index	0.66
SVM decision value	0.74
SVM RNA-class probability	0.837944
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3809292 94 - 22224390
CAGUGGCAGCGAGAAGCUUCUGAUGCUCACACAGCGCACGGAACAAAAUCGUGCUUUGUUGGAGCAGCGCAAGAGGGAUCUGGCCAAGUCUCUU
.((.(((.((.(((..((((((.(((((..((((.((((((.......)))))).))))..)))))...).)))))..))).))...))).)). ( -32.30)
>DroVir_CAF1 10320 94 - 1
CAGCGGCAGCGAGAAGCUGCAAAUGCUUAAUCAGCGCACCGAACAGAAUCGUGCGCUGCUCGAGCAGCGCAAACGUGACAUGGCCAAGUCGCUG
..((((((((.....)))))...((((..(.((((((((.((......)))))))))).)..)))).)))....(((((........))))).. ( -41.00)
>DroPse_CAF1 7813 94 - 1
UAGUGGCAGUGAAAAAGUUCUGAUGCUCACACAGCGCACGGAACAGAAUCGGGCGCUGCUCGAACAGCGAAAGCGAGAUAUGGCCAAAUCACUG
......((((((....((((((.(((.(.....).)))))))))....((((((...))))))...((....))..............)))))) ( -29.00)
>DroGri_CAF1 10259 94 - 1
UAGCGGCAGUGAGAAACUGCAAAUGCUCAAUCAGCGCACCGAGCAGAAUCGUGCGCUGCUCGAGCAGCGUAAACGGGACAUGGCCAAAUCACUA
..((.(((((.....)))))...(((((...((((((((.((......))))))))))...))))))).......((......))......... ( -33.80)
>DroMoj_CAF1 6406 92 - 1
--CGGGCAGCGAGAAGUUGCAAAUGCUGAACCAGCGCACCGAGCAAAAUCGUGCGCUCCUCGAGCAGCGCAAACGCGACAUGGCCAAAUCGCUG
--....((((((....((((...((((((...(((((((.((......)))))))))..)).))))..))))..((......))....)))))) ( -31.20)
>DroAna_CAF1 8637 94 - 1
GAGCGGCAGCGAGAAACUACAGAUGCUCACCCAGCGUACGGAGCAGAAUCGCGCUCUGCUGGAGCAGCGGAAGCGGGAUCUGGCCAAAUCCCUG
....(((((.......)).(((((.(((..(((((....(((((........))))))))))....((....)))))))))))))......... ( -31.70)
>consensus
CAGCGGCAGCGAGAAACUGCAAAUGCUCAAACAGCGCACCGAACAGAAUCGUGCGCUGCUCGAGCAGCGCAAACGGGACAUGGCCAAAUCACUG
....(((..........(((...(((((...((((((((.((......))))))))))...)))))..)))...........)))......... (-21.84 = -22.73 +   0.89)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:38 2006