Locus 2243

Sequence ID	X_DroMel_CAF1
Location	6,058,013 – 6,058,107
Length	94
Max. P	0.999629

overview

Window 2

Location	6,058,013 – 6,058,107
Length	94
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	74.32
Mean single sequence MFE	-23.18
Consensus MFE	-15.55
Energy contribution	-16.55
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.87
Structure conservation index	0.67
SVM decision value	1.35
SVM RNA-class probability	0.944560
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6058013 94 + 22224390
----------UGCAAUGGAAAUGGAAAAUUGU-UAGCAUCAUCAACACGUAGCGUUGACGUGUUGAAAAUGCUGAAAAUUAUAGCACAC--ACAUUGAA-AAGGUGGA------------
----------(((.((....))....((((.(-((((((..(((((((((.......)))))))))..))))))).))))...)))..(--((.((...-.)))))..------------ ( -25.60)
>DroSec_CAF1 69282 95 + 1
----------UGGAAUGGAAAUGGAAAAUUGU-AAGCAUCAUCAACACGUAGCGUUGACGUGUUGAAAAUGCUGAAAAUUAUAGCACACACACAGUGAA-AAGGUGG-------------
----------................((((..-.(((((..(((((((((.......)))))))))..)))))...))))......(((.....)))..-.......------------- ( -21.60)
>DroYak_CAF1 69270 106 + 1
----------UGCAAUGGAAAUGGAAAAUUGU-UAGCAUCAUCAACACGUAGCGUUGACGUGUUGAAAAUGCAGAAAAUUAUAGC-CAC--ACAUUCAAAAAGGUGAUUCCAUGUUGUUG
----------.(((.(((((.(((..((((.(-(.((((..(((((((((.......)))))))))..)))).)).))))....)-))(--((..........))).))))))))..... ( -27.20)
>DroAna_CAF1 73333 114 + 1
CUGGAGCGAAUGAAUUGAAAAUGGAAAAUUGUUUAACAUCAUCAACACGUACCGUUGACGUGUGGAAAAUGCUGAAAAUUAUCACUG----ACACUGAA--UGGAAUUUAUAUGUUUAUC
...(((((.(((((((.......((.((((.((((.(((..((.((((((.......)))))).))..))).)))))))).))....----...((...--.))))))))).)))))... ( -18.30)
>consensus
__________UGCAAUGGAAAUGGAAAAUUGU_UAGCAUCAUCAACACGUAGCGUUGACGUGUUGAAAAUGCUGAAAAUUAUAGCACAC__ACAUUGAA_AAGGUGGU____________
..........................((((...((((((..(((((((((.......)))))))))..))))))..))))........................................ (-15.55 = -16.55 +   1.00)

alignment

secondary structure

dotplot

Window 3

Location	6,058,013 – 6,058,107
Length	94
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	74.32
Mean single sequence MFE	-21.48
Consensus MFE	-16.81
Energy contribution	-17.12
Covariance contribution	0.31
Combinations/Pair	1.07
Mean z-score	-2.61
Structure conservation index	0.78
SVM decision value	3.81
SVM RNA-class probability	0.999629
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6058013 94 - 22224390
------------UCCACCUU-UUCAAUGU--GUGUGCUAUAAUUUUCAGCAUUUUCAACACGUCAACGCUACGUGUUGAUGAUGCUA-ACAAUUUUCCAUUUCCAUUGCA----------
------------........-..(((((.--..(((....((((.(.((((((.(((((((((.......))))))))).)))))).-).))))...)))...)))))..---------- ( -23.90)
>DroSec_CAF1 69282 95 - 1
-------------CCACCUU-UUCACUGUGUGUGUGCUAUAAUUUUCAGCAUUUUCAACACGUCAACGCUACGUGUUGAUGAUGCUU-ACAAUUUUCCAUUUCCAUUCCA----------
-------------.......-......(((...(((....((((.(.((((((.(((((((((.......))))))))).)))))).-).))))...)))...)))....---------- ( -20.50)
>DroYak_CAF1 69270 106 - 1
CAACAACAUGGAAUCACCUUUUUGAAUGU--GUG-GCUAUAAUUUUCUGCAUUUUCAACACGUCAACGCUACGUGUUGAUGAUGCUA-ACAAUUUUCCAUUUCCAUUGCA----------
.......(((((((((......)))....--(((-(....((((....(((((.(((((((((.......))))))))).)))))..-..))))..))))))))))....---------- ( -26.30)
>DroAna_CAF1 73333 114 - 1
GAUAAACAUAUAAAUUCCA--UUCAGUGU----CAGUGAUAAUUUUCAGCAUUUUCCACACGUCAACGGUACGUGUUGAUGAUGUUAAACAAUUUUCCAUUUUCAAUUCAUUCGCUCCAG
...................--.....((.----.((((..((((((.((((((.((.(((((((....).)))))).)).)))))).)).))))...))))..))............... ( -15.20)
>consensus
____________ACCACCUU_UUCAAUGU__GUGUGCUAUAAUUUUCAGCAUUUUCAACACGUCAACGCUACGUGUUGAUGAUGCUA_ACAAUUUUCCAUUUCCAUUGCA__________
...............................................((((((.(((((((((.......))))))))).)))))).................................. (-16.81 = -17.12 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:29:35 2006