Locus 8137

Sequence ID	X_DroMel_CAF1
Location	20,245,570 – 20,245,667
Length	97
Max. P	0.887513

overview

Window 3

Location	20,245,570 – 20,245,667
Length	97
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	81.68
Mean single sequence MFE	-27.22
Consensus MFE	-11.88
Energy contribution	-13.00
Covariance contribution	1.12
Combinations/Pair	1.19
Mean z-score	-2.75
Structure conservation index	0.44
SVM decision value	0.95
SVM RNA-class probability	0.887513
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20245570 97 + 22224390
AAACGUGGCACAUACCAAUUACAUAUAAUGCAUACA------------CAAAUGCCGAAAUGCCAGGACAUUUGCCAGUGUGUGUAUGUGUGUGUGCUUUUU-UUUUGUU
......(((((((((.....((((((...((((((.------------((((((((.........)).))))))...)))))))))))))))))))))....-....... ( -28.00)
>DroSec_CAF1 381 110 + 1
AAACGUGGCAAAUACCAAUUACAUAUAAUGCAUACACACACAUAUUUACAAAUGCCGAAAUGCCAGGACAUUUGCCAGUGUGCGAGUGUGUGUGUUUGCUUUUUUUUGUU
......(((((((....((((....))))((((((((.(.((((((..((((((((.........)).))))))..)))))).).))))))))))))))).......... ( -29.00)
>DroSim_CAF1 1134 109 + 1
AAACGUGGCAAAUACCAAUUACACAUAAUGCAUACACACACAUAUUUACAAAUGCCGAAAUGCCAGGACAUUUGCCAGUGUGCGAGUGUGUGUGUUUGCUUU-UUUUGUU
.((((.(((((((....((((....))))((((((((.(.((((((..((((((((.........)).))))))..)))))).).)))))))))))))))..-...)))) ( -29.50)
>DroEre_CAF1 382 101 + 1
AAACGUGGCAAAUACCAAUUACAUAUAAUGCAUACACACACAUAUUUACCAAUGCCAAAAUGCCAGGACUUUUGUCAGCGUGU--------GUGUGCUUUUU-AUUUGUU
.....(((......)))...(((.((((.((((((((((.(((........))).......((...(((....))).))))))--------))))))...))-)).))). ( -25.10)
>DroYak_CAF1 2354 98 + 1
AAACGUGGCAAAUACCAAUUACAUAUAAUGCAUACACACACAUAUUUAC--------AAAUGCCAGGACUUUUGUCAGUGUGUAUG--UAUGUGUGCUUUUU--UUUGUU
.....(((......)))....((((((.(((((((((((.(((......--------..)))....(((....))).)))))))))--))))))))......--...... ( -24.50)
>consensus
AAACGUGGCAAAUACCAAUUACAUAUAAUGCAUACACACACAUAUUUACAAAUGCCGAAAUGCCAGGACAUUUGCCAGUGUGUGAGUGUGUGUGUGCUUUUU_UUUUGUU
......((((((.......((((((((.(((((((..................((......))..((.(....))).)))))))....))))))))........)))))) (-11.88 = -13.00 +   1.12)

alignment

secondary structure

dotplot

Window 4

Location	20,245,570 – 20,245,667
Length	97
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	81.68
Mean single sequence MFE	-25.98
Consensus MFE	-12.35
Energy contribution	-13.83
Covariance contribution	1.48
Combinations/Pair	1.10
Mean z-score	-2.56
Structure conservation index	0.48
SVM decision value	0.75
SVM RNA-class probability	0.841459
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20245570 97 - 22224390
AACAAAA-AAAAAGCACACACACAUACACACACUGGCAAAUGUCCUGGCAUUUCGGCAUUUG------------UGUAUGCAUUAUAUGUAAUUGGUAUGUGCCACGUUU
.......-.....(((((.((.((((((((...((.(((((((....)))))).).))..))------------)))))).((((....))))..)).)))))....... ( -23.00)
>DroSec_CAF1 381 110 - 1
AACAAAAAAAAGCAAACACACACACUCGCACACUGGCAAAUGUCCUGGCAUUUCGGCAUUUGUAAAUAUGUGUGUGUAUGCAUUAUAUGUAAUUGGUAUUUGCCACGUUU
(((........(((.(((((((((.....(((.((.(((((((....)))))).).))..))).....))))))))).)))............((((....)))).))). ( -28.80)
>DroSim_CAF1 1134 109 - 1
AACAAAA-AAAGCAAACACACACACUCGCACACUGGCAAAUGUCCUGGCAUUUCGGCAUUUGUAAAUAUGUGUGUGUAUGCAUUAUGUGUAAUUGGUAUUUGCCACGUUU
.(((...-...(((.(((((((((.....(((.((.(((((((....)))))).).))..))).....))))))))).)))......)))...((((....))))..... ( -29.30)
>DroEre_CAF1 382 101 - 1
AACAAAU-AAAAAGCACAC--------ACACGCUGACAAAAGUCCUGGCAUUUUGGCAUUGGUAAAUAUGUGUGUGUAUGCAUUAUAUGUAAUUGGUAUUUGCCACGUUU
.(((.((-((...(((.((--------((((((((((....)))..)))......((((........)))))))))).))).)))).)))...((((....))))..... ( -23.90)
>DroYak_CAF1 2354 98 - 1
AACAAA--AAAAAGCACACAUA--CAUACACACUGACAAAAGUCCUGGCAUUU--------GUAAAUAUGUGUGUGUAUGCAUUAUAUGUAAUUGGUAUUUGCCACGUUU
......--...((((...((((--((((((((...(((((.((....)).)))--------)).....)))))))))))).............((((....)))).)))) ( -24.90)
>consensus
AACAAAA_AAAAAGCACACACACACACACACACUGGCAAAUGUCCUGGCAUUUCGGCAUUUGUAAAUAUGUGUGUGUAUGCAUUAUAUGUAAUUGGUAUUUGCCACGUUU
...............................(((((((((((.((..((((....((((..................)))).....))))....))))))))))).)).. (-12.35 = -13.83 +   1.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:56:45 2006