Locus 5909

Sequence ID	2L_DroMel_CAF1
Location	16,694,334 – 16,694,428
Length	94
Max. P	0.947633

overview

Window 5

Location	16,694,334 – 16,694,428
Length	94
Sequences	6
Columns	104
Reading direction	forward
Mean pairwise identity	79.64
Mean single sequence MFE	-42.52
Consensus MFE	-37.99
Energy contribution	-38.30
Covariance contribution	0.31
Combinations/Pair	1.21
Mean z-score	-5.31
Structure conservation index	0.89
SVM decision value	1.37
SVM RNA-class probability	0.947633
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16694334 94 + 22407834
CCACUC-GAUGGCUCAGGUACUUAGUGACUCUCAAU--------GCUUUUGACAUUUUGGGGGUCACUCUGUGCCUGUGCUGCCAGUGGGACAUAAUCUACAA-
(((((.-(..(((.(((((((..(((((((((((((--------((....).)))..)))))))))))..))))))).)))..))))))..............- ( -42.80)
>DroVir_CAF1 84057 102 + 1
ACACCC-CGCUGCUCAGGUACUUAGUGACUCUCAAUCAUCUAUUGCUUUGCAUACCUUGAGGGUCGCUCUGUGCCUGUGCCGCCUGUGCUGCACAACCAACGA-
.(((..-.((.((.(((((((..((((((((((((........(((...)))....))))))))))))..))))))).)).))..)))...............- ( -38.00)
>DroPse_CAF1 167384 95 + 1
ACACUUUGCCGGCUCAGGUACUUAGUGACUCUCAAU--------GCUUUCGACAUCUUGAGAGUCUCUCUGUGCCUGCACUGGCGGUGGUGCAACUGCAACGA-
.((((..(((((..(((((((..((.((((((((((--------((....).)))..)))))))).))..)))))))..))))))))).(((....)))....- ( -41.50)
>DroSec_CAF1 149110 94 + 1
CCACUC-GAUGGCUCAGGUACUUAGUGACUCUCAAU--------GCCUUUGACAUUUUGGGGGUCACUCUGUGCCUGUGCUGCCAGUGGGACAUAAUCUACAA-
(((((.-(..(((.(((((((..((((((((((((.--------............))))))))))))..))))))).)))..))))))..............- ( -42.62)
>DroEre_CAF1 149521 95 + 1
CCACUC-GGUGGCUCAGGUACUUAGUGACUCUCAAU--------GCUUUUGACAUUUUGGGGGUCACUCUGUGCCUGUGCUGCCAGUGGGACGCAAUCAACAAA
(((((.-((..((.(((((((..(((((((((((((--------((....).)))..)))))))))))..))))))).))..)))))))............... ( -48.70)
>DroPer_CAF1 169274 95 + 1
ACACUUUGCCGGCUCAGGUACUUAGUGACUCUCAAU--------GCUUUCGACAUCUUGAGAGUCUCUCUGUGCCUGCACUGGCGGUGGUGCAACUGCAACGA-
.((((..(((((..(((((((..((.((((((((((--------((....).)))..)))))))).))..)))))))..))))))))).(((....)))....- ( -41.50)
>consensus
ACACUC_GACGGCUCAGGUACUUAGUGACUCUCAAU________GCUUUUGACAUCUUGAGGGUCACUCUGUGCCUGUGCUGCCAGUGGGACAAAAUCAACAA_
.((((..((((((.(((((((..((((((((((((.....................))))))))))))..))))))).))))))))))................ (-37.99 = -38.30 +   0.31)

alignment

secondary structure

dotplot

Window 6

Location	16,694,334 – 16,694,428
Length	94
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	79.64
Mean single sequence MFE	-32.05
Consensus MFE	-16.76
Energy contribution	-16.32
Covariance contribution	-0.44
Combinations/Pair	1.17
Mean z-score	-2.14
Structure conservation index	0.52
SVM decision value	0.34
SVM RNA-class probability	0.695080
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 16694334 94 - 22407834
-UUGUAGAUUAUGUCCCACUGGCAGCACAGGCACAGAGUGACCCCCAAAAUGUCAAAAGC--------AUUGAGAGUCACUAAGUACCUGAGCCAUC-GAGUGG
-..............(((((.(..((.((((.((..((((((.(....(((((.....))--------)))..).))))))..)).)))).))...)-.))))) ( -28.60)
>DroVir_CAF1 84057 102 - 1
-UCGUUGGUUGUGCAGCACAGGCGGCACAGGCACAGAGCGACCCUCAAGGUAUGCAAAGCAAUAGAUGAUUGAGAGUCACUAAGUACCUGAGCAGCG-GGGUGU
-((((((.((((((.((....)).))))(((.((..((.(((.(((((.((.(((...)))....))..))))).))).))..)).))))).)))))-)..... ( -31.30)
>DroPse_CAF1 167384 95 - 1
-UCGUUGCAGUUGCACCACCGCCAGUGCAGGCACAGAGAGACUCUCAAGAUGUCGAAAGC--------AUUGAGAGUCACUAAGUACCUGAGCCGGCAAAGUGU
-..(.(((....))).)...(((.((.((((.((..((.((((((((..(((.(....))--------)))))))))).))..)).)))).)).)))....... ( -35.90)
>DroSec_CAF1 149110 94 - 1
-UUGUAGAUUAUGUCCCACUGGCAGCACAGGCACAGAGUGACCCCCAAAAUGUCAAAGGC--------AUUGAGAGUCACUAAGUACCUGAGCCAUC-GAGUGG
-..............(((((.(..((.((((.((..((((((.(....(((((.....))--------)))..).))))))..)).)))).))...)-.))))) ( -30.10)
>DroEre_CAF1 149521 95 - 1
UUUGUUGAUUGCGUCCCACUGGCAGCACAGGCACAGAGUGACCCCCAAAAUGUCAAAAGC--------AUUGAGAGUCACUAAGUACCUGAGCCACC-GAGUGG
...............(((((((..((.((((.((..((((((.(....(((((.....))--------)))..).))))))..)).)))).))..))-.))))) ( -30.50)
>DroPer_CAF1 169274 95 - 1
-UCGUUGCAGUUGCACCACCGCCAGUGCAGGCACAGAGAGACUCUCAAGAUGUCGAAAGC--------AUUGAGAGUCACUAAGUACCUGAGCCGGCAAAGUGU
-..(.(((....))).)...(((.((.((((.((..((.((((((((..(((.(....))--------)))))))))).))..)).)))).)).)))....... ( -35.90)
>consensus
_UCGUUGAUUAUGCACCACUGGCAGCACAGGCACAGAGUGACCCCCAAAAUGUCAAAAGC________AUUGAGAGUCACUAAGUACCUGAGCCACC_GAGUGG
...............((((.((..((.((((.((..((.(((.(.(((.....................))).).))).))..)).)))).))..))...)))) (-16.76 = -16.32 +  -0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:11 2006