Locus 265

Sequence ID	X_DroMel_CAF1
Location	900,111 – 900,204
Length	93
Max. P	0.707833

overview

Window 6

Location	900,111 – 900,204
Length	93
Sequences	6
Columns	93
Reading direction	forward
Mean pairwise identity	82.76
Mean single sequence MFE	-33.39
Consensus MFE	-22.26
Energy contribution	-24.57
Covariance contribution	2.31
Combinations/Pair	1.17
Mean z-score	-2.02
Structure conservation index	0.67
SVM decision value	0.23
SVM RNA-class probability	0.643138
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 900111 93 + 22224390
CGGCAGCCUCCACUUCCAUCGGUGGCUCCUCAACGGCGACCUCCCAGCUCUCGCCGAACUCCGAGGAGAGCGAGCUGCCUUUCGUCCUUCCCU
.(((((((.(((((......)))))((((((..((((((...........))))))......))))))...).)))))).............. ( -33.90)
>DroSec_CAF1 15126 93 + 1
CGGCAGCCUCCACUUCCCUCGGUGGCUCCUCAACGGCGACCUCCCAGCUCUCGCCGAACUCCGAGGAGAGCGAGCUGCCCUUCGUCCUGCCUU
.((((((.((..((..(((((((((....))).((((((...........))))))....))))))..)).)))))))).............. ( -34.40)
>DroSim_CAF1 15818 93 + 1
CGGCAGCCUCCACUUCCCUCGGUGGCUCCUCAACGGCGACCUCCCAGCUCUCGCCGAACUCCGAGGAGAGCGAGCUGCCCUUCCUCCUGCCCU
.((((((.((..((..(((((((((....))).((((((...........))))))....))))))..)).)))))))).............. ( -34.40)
>DroEre_CAF1 9079 93 + 1
CGGCAGCCUCCACUUCCCUCAGUGGCUCCUCGACGGCGCCCUCCCAGCUCUCGCCGGAUUCCGAGGAGAGCGAGCUGCCCUUCGUCCUGCCCU
.(((((((.(((((......)))))(((((((.(((((.............))))).....)))))))...).)))))).............. ( -35.02)
>DroYak_CAF1 8912 84 + 1
CGGCAGCCUCCUCCAC---------UUCCUCCACGGCGCCCUCCCAGCUCUCGCCGAACUCCGAGGAGAGCGAGCUGCCCUUCGUCCUGCCCU
.((((((.(((((...---------.(((((..(((((.............)))))......)))))))).)))))))).............. ( -27.12)
>DroAna_CAF1 11031 90 + 1
CUGGAGCAACGGGAUC---AGCUGGGUCCUCCACCACGACGGCCCAGCUCUCGCCCGAUUCGGAGGAGAGCGAACAGCCCUUUGUCCUGCCAC
...(.(((.((((...---(((((((((.((......)).)))))))))....))))....(((((((.((.....)).)))).))))))).. ( -35.50)
>consensus
CGGCAGCCUCCACUUCCCUCGGUGGCUCCUCAACGGCGACCUCCCAGCUCUCGCCGAACUCCGAGGAGAGCGAGCUGCCCUUCGUCCUGCCCU
.((((((..(((((......)))))((((((..((((((...........))))))......)))))).....)))))).............. (-22.26 = -24.57 +   2.31)

alignment

secondary structure

dotplot

Window 7

Location	900,111 – 900,204
Length	93
Sequences	6
Columns	93
Reading direction	reverse
Mean pairwise identity	82.76
Mean single sequence MFE	-42.02
Consensus MFE	-28.15
Energy contribution	-29.18
Covariance contribution	1.03
Combinations/Pair	1.26
Mean z-score	-2.22
Structure conservation index	0.67
SVM decision value	0.37
SVM RNA-class probability	0.707833
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 900111 93 - 22224390
AGGGAAGGACGAAAGGCAGCUCGCUCUCCUCGGAGUUCGGCGAGAGCUGGGAGGUCGCCGUUGAGGAGCCACCGAUGGAAGUGGAGGCUGCCG
..............(((((((((((.(((((((..((((((....)))))).(((..((.....)).))).)))).)))))))..))))))). ( -40.40)
>DroSec_CAF1 15126 93 - 1
AAGGCAGGACGAAGGGCAGCUCGCUCUCCUCGGAGUUCGGCGAGAGCUGGGAGGUCGCCGUUGAGGAGCCACCGAGGGAAGUGGAGGCUGCCG
..............(((((((((((..((((((..((((((....)))))).(((..((.....)).))).))))))..))))..))))))). ( -45.60)
>DroSim_CAF1 15818 93 - 1
AGGGCAGGAGGAAGGGCAGCUCGCUCUCCUCGGAGUUCGGCGAGAGCUGGGAGGUCGCCGUUGAGGAGCCACCGAGGGAAGUGGAGGCUGCCG
..............(((((((((((..((((((..((((((....)))))).(((..((.....)).))).))))))..))))..))))))). ( -45.60)
>DroEre_CAF1 9079 93 - 1
AGGGCAGGACGAAGGGCAGCUCGCUCUCCUCGGAAUCCGGCGAGAGCUGGGAGGGCGCCGUCGAGGAGCCACUGAGGGAAGUGGAGGCUGCCG
..............(((((((((((..((((((..((((((....))))))..(((.((.....)).))).))))))..))))..))))))). ( -49.50)
>DroYak_CAF1 8912 84 - 1
AGGGCAGGACGAAGGGCAGCUCGCUCUCCUCGGAGUUCGGCGAGAGCUGGGAGGGCGCCGUGGAGGAA---------GUGGAGGAGGCUGCCG
..............(((((((((((((((.(((.(((((((....)))))....)).))).))))..)---------))).....))))))). ( -35.10)
>DroAna_CAF1 11031 90 - 1
GUGGCAGGACAAAGGGCUGUUCGCUCUCCUCCGAAUCGGGCGAGAGCUGGGCCGUCGUGGUGGAGGACCCAGCU---GAUCCCGUUGCUCCAG
(..((((((...(((((.....)))))..)))....((((....(((((((((.((......)))).)))))))---...)))).)))..).. ( -35.90)
>consensus
AGGGCAGGACGAAGGGCAGCUCGCUCUCCUCGGAGUUCGGCGAGAGCUGGGAGGUCGCCGUUGAGGAGCCACCGAGGGAAGUGGAGGCUGCCG
..............(((((((....((((((((..((((((....)))))).((...)).))))))))((((........)))).))))))). (-28.15 = -29.18 +   1.03)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:25 2006