Locus 4609

Sequence ID	2R_DroMel_CAF1
Location	15,022,905 – 15,023,001
Length	96
Max. P	0.820724

overview

Window 6

Location	15,022,905 – 15,023,001
Length	96
Sequences	5
Columns	98
Reading direction	forward
Mean pairwise identity	90.60
Mean single sequence MFE	-29.54
Consensus MFE	-23.98
Energy contribution	-23.62
Covariance contribution	-0.36
Combinations/Pair	1.19
Mean z-score	-1.62
Structure conservation index	0.81
SVM decision value	0.62
SVM RNA-class probability	0.801137
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15022905 96 + 20766785
UACUAUAACCAUUCACGUGGGUGCCAGUUGGUCUGCCAAUGCCAGUUUUUUGCGUGUGGCAUCAAUAAUAUGACAGCCAUAUAAAAUGUGGCCA--GG
........((..(((..(.((((((((((((....)))))(((((....))).)).)))))))....)..)))..(((((((...)))))))..--)) ( -26.10)
>DroSec_CAF1 10780 96 + 1
UACUAUAACCAUUCACGUGGGUGCCAGUAGGUCUGCCAAUGCCGUUUUUUUGCGUGCGGCAUCAAUAAUGUGGCAGCCAUAUAAAAUGUGGCCA--GG
........((..((((((.((((((....((....))...(((((......))).))))))))....))))))..(((((((...)))))))..--)) ( -31.00)
>DroSim_CAF1 8767 96 + 1
UACUAUAACCAUUCACGUGGGUGCCAGUAGGUCUGCCAAUGCCAUUUUUUUGCGUGUGGCAUCAAUAAUGUGGCAGCCAUAUAAAAUGUGGCCA--GG
........((..((((((.(((((((...((....)).((((.........)))).)))))))....))))))..(((((((...)))))))..--)) ( -27.80)
>DroEre_CAF1 10137 95 + 1
UACUAUAGCCAUUCACGUGGGUGCCACCAGGUCUGCCAAUGCCAUUU-UUUGCGUGUGGCAUCAAUAACGUGGCCGGCAUAUAAAUUGUGGCCA--GG
...(((((((..((((((.((((((((..((....)).((((.....-...))))))))))))....))))))..))).))))...........--.. ( -31.50)
>DroYak_CAF1 10119 98 + 1
UACUAUAAGCAUUCACAUGGGUGCCACUAGGUCUGCCAAUGCCAUUUUUUUGCGUGUGGCAUCAAUAAUGUGGCGGGCAUAUAAAAUGUGGUCCUGGC
..(((...((((((....))))))...)))....((((..(((((((((.(((.(((.((((.....)))).))).)))...)))).)))))..)))) ( -31.30)
>consensus
UACUAUAACCAUUCACGUGGGUGCCAGUAGGUCUGCCAAUGCCAUUUUUUUGCGUGUGGCAUCAAUAAUGUGGCAGCCAUAUAAAAUGUGGCCA__GG
........((..((((((.((((((....((....)).((((.........))))..))))))....))))))..((((((.....))))))....)) (-23.98 = -23.62 +  -0.36)

alignment

secondary structure

dotplot

Window 7

Location	15,022,905 – 15,023,001
Length	96
Sequences	5
Columns	98
Reading direction	reverse
Mean pairwise identity	90.60
Mean single sequence MFE	-25.90
Consensus MFE	-22.28
Energy contribution	-22.68
Covariance contribution	0.40
Combinations/Pair	1.14
Mean z-score	-1.48
Structure conservation index	0.86
SVM decision value	0.68
SVM RNA-class probability	0.820724
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15022905 96 - 20766785
CC--UGGCCACAUUUUAUAUGGCUGUCAUAUUAUUGAUGCCACACGCAAAAAACUGGCAUUGGCAGACCAACUGGCACCCACGUGAAUGGUUAUAGUA
..--((((((...((((..(((.(((((.......(((((((............)))))))((....))...))))).)))..))))))))))..... ( -24.30)
>DroSec_CAF1 10780 96 - 1
CC--UGGCCACAUUUUAUAUGGCUGCCACAUUAUUGAUGCCGCACGCAAAAAAACGGCAUUGGCAGACCUACUGGCACCCACGUGAAUGGUUAUAGUA
..--((((((...((((..(((.(((((.......(((((((............)))))))((....))...))))).)))..))))))))))..... ( -27.60)
>DroSim_CAF1 8767 96 - 1
CC--UGGCCACAUUUUAUAUGGCUGCCACAUUAUUGAUGCCACACGCAAAAAAAUGGCAUUGGCAGACCUACUGGCACCCACGUGAAUGGUUAUAGUA
..--((((((...((((..(((.(((((.......(((((((............)))))))((....))...))))).)))..))))))))))..... ( -26.30)
>DroEre_CAF1 10137 95 - 1
CC--UGGCCACAAUUUAUAUGCCGGCCACGUUAUUGAUGCCACACGCAAA-AAAUGGCAUUGGCAGACCUGGUGGCACCCACGUGAAUGGCUAUAGUA
..--((((((((.......(((((.(((.(((.(..((((((........-...))))))..)..))).))))))))......))..))))))..... ( -28.82)
>DroYak_CAF1 10119 98 - 1
GCCAGGACCACAUUUUAUAUGCCCGCCACAUUAUUGAUGCCACACGCAAAAAAAUGGCAUUGGCAGACCUAGUGGCACCCAUGUGAAUGCUUAUAGUA
.............((((((((...(((((......(((((((............)))))))((....))..)))))...))))))))........... ( -22.50)
>consensus
CC__UGGCCACAUUUUAUAUGGCUGCCACAUUAUUGAUGCCACACGCAAAAAAAUGGCAUUGGCAGACCUACUGGCACCCACGUGAAUGGUUAUAGUA
....((((((...(((((.(((.(((((.......(((((((............)))))))((....))...))))).))).)))))))))))..... (-22.28 = -22.68 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:24:38 2006