Locus 4972

Sequence ID	3L_DroMel_CAF1
Location	13,729,732 – 13,729,831
Length	99
Max. P	0.997871

overview

Window 7

Location	13,729,732 – 13,729,831
Length	99
Sequences	5
Columns	99
Reading direction	forward
Mean pairwise identity	93.74
Mean single sequence MFE	-26.03
Consensus MFE	-23.34
Energy contribution	-23.46
Covariance contribution	0.12
Combinations/Pair	1.11
Mean z-score	-1.87
Structure conservation index	0.90
SVM decision value	2.36
SVM RNA-class probability	0.992891
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13729732 99 + 23771897
CUUAUUCUUGCGAUGCCCGAACAAUAGGAGUUUUGCAAGUUAGCAAAAUGCUUUUAUUUCCGAGACAGGGCAAAAACUCUUUGCGAAAUAUUCCUUUUU
..((((.(((((((((((....((((((((((((((......)))))..))))))))).........)))))........))))))))))......... ( -20.92)
>DroSec_CAF1 136656 99 + 1
CUUAUUCUUGCGAUGCCCGAACAAUAGGAGUUUUGCAAGUUGGCAAAAUGCUUUUAUUUCCGAGGCAGGGCAAGAACACUUUGCGAAAUCUUCCUUUUU
....(((((((..((((((...((((((((((((((......)))))..)))))))))..)).))))..)))))))....................... ( -29.10)
>DroSim_CAF1 147370 99 + 1
CUUAUUCUUGCGAUGCCCGAACAAUAGGAGUUUUGCAAGUUGGCAAAAUGCUUUUAUUUCCGAGGCAGGGCAAGAACACUUUGCGAAAUCUUCCUUUUU
....(((((((..((((((...((((((((((((((......)))))..)))))))))..)).))))..)))))))....................... ( -29.10)
>DroEre_CAF1 143119 99 + 1
CUUAUUCUUGCGAUGCCCGAACAAUGGGAGUUUUGCAAGUUAGCAAAAUGCUUUCAUUUCUAAGGCAAGGCAAGAGCACUUUGCGAAAUCUUCCUUUUU
.....((((((..((((.....((((..((((((((......)))))..)))..)))).....))))..))))))((.....))............... ( -28.50)
>DroYak_CAF1 147167 99 + 1
CUUAUUCUUGCGAUGGCCGAACAAUGGGAGUUUUGCAAGUUAGCAAAAUGCUUUCAUUUCUGAGGCAAGGCCAGAACACUUUGCGAAAUCUUCCUUUUU
.......(((((((((((...(((((..((((((((......)))))..)))..)))).....)....))))).......))))))............. ( -22.51)
>consensus
CUUAUUCUUGCGAUGCCCGAACAAUAGGAGUUUUGCAAGUUAGCAAAAUGCUUUUAUUUCCGAGGCAGGGCAAGAACACUUUGCGAAAUCUUCCUUUUU
....(((((((..((((((...((((((((((((((......)))))..)))))))))..)).))))..)))))))....................... (-23.34 = -23.46 +   0.12)

alignment

secondary structure

dotplot

Window 8

Location	13,729,732 – 13,729,831
Length	99
Sequences	5
Columns	99
Reading direction	reverse
Mean pairwise identity	93.74
Mean single sequence MFE	-25.26
Consensus MFE	-22.64
Energy contribution	-22.92
Covariance contribution	0.28
Combinations/Pair	1.14
Mean z-score	-2.10
Structure conservation index	0.90
SVM decision value	2.95
SVM RNA-class probability	0.997871
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13729732 99 - 23771897
AAAAAGGAAUAUUUCGCAAAGAGUUUUUGCCCUGUCUCGGAAAUAAAAGCAUUUUGCUAACUUGCAAAACUCCUAUUGUUCGGGCAUCGCAAGAAUAAG
......................((((((((..((((.((((((((..((..((((((......))))))))..)))).))))))))..))))))))... ( -21.80)
>DroSec_CAF1 136656 99 - 1
AAAAAGGAAGAUUUCGCAAAGUGUUCUUGCCCUGCCUCGGAAAUAAAAGCAUUUUGCCAACUUGCAAAACUCCUAUUGUUCGGGCAUCGCAAGAAUAAG
.....................(((((((((..((((.((((((((..((..((((((......))))))))..)))).))))))))..))))))))).. ( -26.90)
>DroSim_CAF1 147370 99 - 1
AAAAAGGAAGAUUUCGCAAAGUGUUCUUGCCCUGCCUCGGAAAUAAAAGCAUUUUGCCAACUUGCAAAACUCCUAUUGUUCGGGCAUCGCAAGAAUAAG
.....................(((((((((..((((.((((((((..((..((((((......))))))))..)))).))))))))..))))))))).. ( -26.90)
>DroEre_CAF1 143119 99 - 1
AAAAAGGAAGAUUUCGCAAAGUGCUCUUGCCUUGCCUUAGAAAUGAAAGCAUUUUGCUAACUUGCAAAACUCCCAUUGUUCGGGCAUCGCAAGAAUAAG
...............((.....))((((((..(((((....((((..((..((((((......))))))))..))))....)))))..))))))..... ( -25.90)
>DroYak_CAF1 147167 99 - 1
AAAAAGGAAGAUUUCGCAAAGUGUUCUGGCCUUGCCUCAGAAAUGAAAGCAUUUUGCUAACUUGCAAAACUCCCAUUGUUCGGCCAUCGCAAGAAUAAG
.....((((.((((....)))).))))((((.(((.(((....)))..)))((((((......))))))............)))).((....))..... ( -24.80)
>consensus
AAAAAGGAAGAUUUCGCAAAGUGUUCUUGCCCUGCCUCGGAAAUAAAAGCAUUUUGCUAACUUGCAAAACUCCUAUUGUUCGGGCAUCGCAAGAAUAAG
.....................(((((((((..((((.((((((((..((..((((((......))))))))..)))).))))))))..))))))))).. (-22.64 = -22.92 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:17 2006