Locus 2905

Sequence ID	3L_DroMel_CAF1
Location	8,291,395 – 8,291,544
Length	149
Max. P	0.958289

overview

Window 4

Location	8,291,395 – 8,291,513
Length	118
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	98.40
Mean single sequence MFE	-43.98
Consensus MFE	-38.86
Energy contribution	-38.54
Covariance contribution	-0.32
Combinations/Pair	1.06
Mean z-score	-1.62
Structure conservation index	0.88
SVM decision value	0.67
SVM RNA-class probability	0.819225
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8291395 118 - 23771897
UGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACG-CGCCAGCCUGCCACAAGAAUCAAAUGACACUCGGCCUGGUCCAUUUCG-GUCGCU
.((((((...))))))..(((..(.((..((((((..(((((..(((((..(((((.......)-))))...((......)).......)))))..))))).))))))..)).-)..))) ( -46.80)
>DroSec_CAF1 17346 118 - 1
UGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACG-CGCCAGCCUGCCACAAGAAUCAAAUGACACUCGGCCUGGUCCAUUUCG-GUCGCU
.((((((...))))))..(((..(.((..((((((..(((((..(((((..(((((.......)-))))...((......)).......)))))..))))).))))))..)).-)..))) ( -46.80)
>DroSim_CAF1 12868 119 - 1
UGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACG-CGCCAGCCUGCCACAAGAAUCAAAUGACACUCGGCCUGGUCCAUUUCGGGUCGCU
...((.((((((((.....)))...((..((((((..(((((..(((((..(((((.......)-))))...((......)).......)))))..))))).))))))..))))))))). ( -45.90)
>DroEre_CAF1 13241 119 - 1
UGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACGACGCCAGCCUGCCACAAGAAUCAAAUGACACUCGGUCUGGUCCAUUUCG-GUCGCU
.((((((...))))))..(((..(.((..((((((..(..((..(((((..(((((.......).))))...((......)).......)))))..))..).))))))..)).-)..))) ( -38.80)
>DroYak_CAF1 12757 119 - 1
UGUGCCGACUCGGCAUGGAGCUUUGAAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACGCCGCCAGCCUGCCACAAGAAUCAAAUGACACUCGGCCUGGUCCAUUUCG-GUCGCU
.((((((...))))))..(((.(((((..((((((..(((((..(((((..((((.......))))((......)).............)))))..))))).)))))).))))-)..))) ( -41.60)
>consensus
UGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACG_CGCCAGCCUGCCACAAGAAUCAAAUGACACUCGGCCUGGUCCAUUUCG_GUCGCU
.((((((...))))))..(((..((((..((((((..(((((..(((((..(((((.......).))))...((......)).......)))))..))))).)))))).))))....))) (-38.86 = -38.54 +  -0.32)

alignment

secondary structure

dotplot

Window 5

Location	8,291,434 – 8,291,544
Length	110
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.49
Mean single sequence MFE	-41.74
Consensus MFE	-35.14
Energy contribution	-35.50
Covariance contribution	0.36
Combinations/Pair	1.08
Mean z-score	-1.91
Structure conservation index	0.84
SVM decision value	1.49
SVM RNA-class probability	0.958289
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8291434 110 - 23771897
UUUGU---------UUUGUUUGCUGGUGAUUCGUGUAAACUGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACG-CGCCAGCCUGCCACA
.....---------...((..(((((((.(((((((...((((((((...)))))))).(((((.(((.(((((....))).)).))).))))))))))))...-)))))))..)).... ( -42.00)
>DroSec_CAF1 17385 110 - 1
UUUUU---------UUUGUUCGCUGGUGAUUUGUGUAAACUGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACG-CGCCAGCCUGCCACA
.....---------...((..(((((((.((..(((...((((((((...)))))))).(((((.(((.(((((....))).)).))).))))))))..))...-)))))))..)).... ( -39.10)
>DroSim_CAF1 12908 110 - 1
UUUUU---------UUUGUUCGCUGGUGAUUCGUGUAAACUGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACG-CGCCAGCCUGCCACA
.....---------...((..(((((((.(((((((...((((((((...)))))))).(((((.(((.(((((....))).)).))).))))))))))))...-)))))))..)).... ( -41.80)
>DroEre_CAF1 13280 120 - 1
UCUGCAUGGUGGCUAUUGCUAUUGGGUGAUUCGUGUAAACUGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACGACGCCAGCCUGCCACA
........(((((....(((....((((.(((((((...((((((((...)))))))).(((((.(((.(((((....))).)).))).))))))))))))....)))))))..))))). ( -42.40)
>DroYak_CAF1 12796 120 - 1
UUUGUUUGGUGGCCAUUGCUAUUGGGUGAUUCGUGUAAACUGUGCCGACUCGGCAUGGAGCUUUGAAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACGCCGCCAGCCUGCCACA
........(((((....(((....((((.(((((((...((((((((...))))))))..((((((...(((((....))).))..))))))..))))))).))))...)))..))))). ( -43.40)
>consensus
UUUGU_________UUUGUUAGCUGGUGAUUCGUGUAAACUGUGCCGACUCGGCAUGGAGCUUUGGAUUUGGACCCUGGUUGCAUGUCAAAGGCGCAUGAAACG_CGCCAGCCUGCCACA
.................((..(((((((.(((((((...((((((((...)))))))).(((((.(((.(((((....))).)).))).))))))))))))....)))))))..)).... (-35.14 = -35.50 +   0.36)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:39 2006