Locus 3323

Sequence ID	X_DroMel_CAF1
Location	8,878,694 – 8,878,824
Length	130
Max. P	0.997347

overview

Window 7

Location	8,878,694 – 8,878,785
Length	91
Sequences	5
Columns	93
Reading direction	forward
Mean pairwise identity	97.39
Mean single sequence MFE	-23.36
Consensus MFE	-20.94
Energy contribution	-21.18
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-1.31
Structure conservation index	0.90
SVM decision value	0.22
SVM RNA-class probability	0.637673
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8878694 91 + 22224390
AAAACCCUCCA--UUUCCCCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGCCG
...........--........((.(((((((....(((....))))))))))....((((.((((.((........)).))))..)))))).. ( -23.20)
>DroSec_CAF1 9005 91 + 1
AAAACCCUCCA--UUUCCCCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGCCG
...........--........((.(((((((....(((....))))))))))....((((.((((.((........)).))))..)))))).. ( -23.20)
>DroSim_CAF1 9321 91 + 1
AAAACCCUCCA--UUUCCCCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGCCG
...........--........((.(((((((....(((....))))))))))....((((.((((.((........)).))))..)))))).. ( -23.20)
>DroEre_CAF1 8488 91 + 1
AAAACCCUCCA--UUUCCCCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGUCG
...........--...........(((((((....(((....)))))))))).(((((((.((((.((........)).))))..))))))). ( -27.30)
>DroYak_CAF1 9411 93 + 1
AAAACCCUCCAUAUUUCCACAGCAGCCGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCGAGCCG
.....................(((((((((((((((((....).))))))...))))))).((((.((........)).)))).)))...... ( -19.90)
>consensus
AAAACCCUCCA__UUUCCCCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGCCG
.....................((.(((((((....(((....))))))))))....((((.((((.((........)).))))..)))))).. (-20.94 = -21.18 +   0.24)

alignment

secondary structure

dotplot

Window 8

Location	8,878,710 – 8,878,824
Length	114
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	97.88
Mean single sequence MFE	-33.12
Consensus MFE	-31.74
Energy contribution	-31.98
Covariance contribution	0.24
Combinations/Pair	1.03
Mean z-score	-2.02
Structure conservation index	0.96
SVM decision value	2.84
SVM RNA-class probability	0.997347
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8878710 114 + 22224390
CCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGCCGAAAACUGGCUAGCCAAAUUAUGAAUAAGUGUGCUGUAAA
.((((((((((((....(((....))))))))))...((((((((((.((........)).))))..(((((.......))))).))))))..............))))).... ( -35.90)
>DroSec_CAF1 9021 113 + 1
CCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGCCGAAAACUGGUU-GCCAAAUUAUGAAUAAGUGUGCUGUAAA
.((((((((((((....(((....))))))))))...(((((.((((.((........)).))))..(((((.......))))).-)))))..............))))).... ( -32.90)
>DroSim_CAF1 9337 113 + 1
CCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGCCGAAAACUGGUU-GCCAAAUUAUGAAUAAGUGUGCUGUAAA
.((((((((((((....(((....))))))))))...(((((.((((.((........)).))))..(((((.......))))).-)))))..............))))).... ( -32.90)
>DroEre_CAF1 8504 113 + 1
CCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGUCGAAAACUGGUU-GCCAAAUUAUGAAUAAGUGUGCUGUAAA
.((((((((((((....(((....))))))))))...(((((.((((.((........)).))))..((((((.....)))))).-)))))..............))))).... ( -34.50)
>DroYak_CAF1 9429 113 + 1
ACAGCAGCCGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCGAGCCGAAAACUGGUU-GCCAAAUUAUGAAUAAGUGUGCUGUAAA
((((((((((((((((((((....).))))))...))))))).((((.((........)).))))..((.(((((.....)))))-)).................))))))... ( -29.40)
>consensus
CCAGCAGCAGAUUAGAUUUCAAUUGAAGAUUUGCAGAUUGGCUUCCCUCGUUGAUUUUCGUGGGAUUGCCAGCCGAAAACUGGUU_GCCAAAUUAUGAAUAAGUGUGCUGUAAA
.((((((((((((....(((....))))))))))...(((((.((((.((........)).))))..(((((.......)))))..)))))..............))))).... (-31.74 = -31.98 +   0.24)

alignment

secondary structure

dotplot

Window 9

Location	8,878,710 – 8,878,824
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	97.88
Mean single sequence MFE	-27.50
Consensus MFE	-24.34
Energy contribution	-24.38
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-2.12
Structure conservation index	0.89
SVM decision value	2.05
SVM RNA-class probability	0.986664
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 8878710 114 - 22224390
UUUACAGCACACUUAUUCAUAAUUUGGCUAGCCAGUUUUCGGCUGGCAAUCCCACGAAAAUCAACGAGGGAAGCCAAUCUGCAAAUCUUCAAUUGAAAUCUAAUCUGCUGCUGG
....(((((((............((((((.((((((.....))))))..((((.((........)).))))))))))..........(((....)))........)).))))). ( -32.80)
>DroSec_CAF1 9021 113 - 1
UUUACAGCACACUUAUUCAUAAUUUGGC-AACCAGUUUUCGGCUGGCAAUCCCACGAAAAUCAACGAGGGAAGCCAAUCUGCAAAUCUUCAAUUGAAAUCUAAUCUGCUGCUGG
....(((((((............(((((-..(((((.....)))))...((((.((........)).)))).)))))..........(((....)))........)).))))). ( -27.70)
>DroSim_CAF1 9337 113 - 1
UUUACAGCACACUUAUUCAUAAUUUGGC-AACCAGUUUUCGGCUGGCAAUCCCACGAAAAUCAACGAGGGAAGCCAAUCUGCAAAUCUUCAAUUGAAAUCUAAUCUGCUGCUGG
....(((((((............(((((-..(((((.....)))))...((((.((........)).)))).)))))..........(((....)))........)).))))). ( -27.70)
>DroEre_CAF1 8504 113 - 1
UUUACAGCACACUUAUUCAUAAUUUGGC-AACCAGUUUUCGACUGGCAAUCCCACGAAAAUCAACGAGGGAAGCCAAUCUGCAAAUCUUCAAUUGAAAUCUAAUCUGCUGCUGG
....(((((((............(((((-..((((((...))))))...((((.((........)).)))).)))))..........(((....)))........)).))))). ( -27.50)
>DroYak_CAF1 9429 113 - 1
UUUACAGCACACUUAUUCAUAAUUUGGC-AACCAGUUUUCGGCUCGCAAUCCCACGAAAAUCAACGAGGGAAGCCAAUCUGCAAAUCUUCAAUUGAAAUCUAAUCGGCUGCUGU
...((((((..(...........(((((-..((.......)).......((((.((........)).)))).)))))..........(((....)))........)..)))))) ( -21.80)
>consensus
UUUACAGCACACUUAUUCAUAAUUUGGC_AACCAGUUUUCGGCUGGCAAUCCCACGAAAAUCAACGAGGGAAGCCAAUCUGCAAAUCUUCAAUUGAAAUCUAAUCUGCUGCUGG
....((((((.............(((((...(((((.....)))))...((((.((........)).)))).)))))..........(((....))).........).))))). (-24.34 = -24.38 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:28 2006