Locus 5110

Sequence ID	3L_DroMel_CAF1
Location	14,024,299 – 14,024,392
Length	93
Max. P	0.995033

overview

Window 5

Location	14,024,299 – 14,024,392
Length	93
Sequences	6
Columns	107
Reading direction	forward
Mean pairwise identity	71.19
Mean single sequence MFE	-26.81
Consensus MFE	-9.51
Energy contribution	-12.32
Covariance contribution	2.81
Combinations/Pair	1.19
Mean z-score	-2.87
Structure conservation index	0.35
SVM decision value	2.53
SVM RNA-class probability	0.995033
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14024299 93 + 23771897
UCACUAAGCUCACAUGUG-GCUUACGCUU------UAUUGAUUGUGUUCAUGAUUCGCAUGAAAAUCAAUUUA-----UGUAGCCCAUGUGGCUU-UUCCA-AUAAA
.....((((.((((((.(-(((.(((...------.(((((((...((((((.....)))))))))))))...-----)))))))))))))))))-.....-..... ( -29.90)
>DroPse_CAF1 24101 104 + 1
ACACUGAACACAUUUGUUUAUUUACGAUCUGUUGCGGUUGUUGGUGUUCAAGAUACGCAGGAAAAUCGCUUUAGAUUAAGUGCCGCAUGUGGGCUAUU---AAUCGG
.....(..(((((.((..((((((..(((((..((((((....((((.......)))).....))))))..))))))))))).)).)))))..)....---...... ( -24.40)
>DroSec_CAF1 22871 93 + 1
UCACUAAGCUCACAUGUG--CUUACGCUU------UUUUGAUUGUGUUCAUGAUUCGCAUGAAAAUCAAUUUA-----UAUAGCGCAUGUGGCUUAUUCCC-AUAAA
....(((((.((((((((--((.......------..((((((...((((((.....))))))))))))....-----...))))))))))))))).....-..... ( -29.89)
>DroSim_CAF1 23475 93 + 1
UCACUAAGCUCACAUGUG--CUUACGCUU------UUUUGAUUGUGUUCAUGAUUCGCAUGAAAAUCAAUUUA-----UAUAGCGCAUGUGGCUUAUUCUC-AUAAA
....(((((.((((((((--((.......------..((((((...((((((.....))))))))))))....-----...))))))))))))))).....-..... ( -29.89)
>DroYak_CAF1 23583 94 + 1
UCACUGAGCACACAUGUG--CCUAGGUUU------UUCCGAUUCUGUUCAUGAUUCGCAUGAAAACCAAUUUU-----AGUAGCGCAUGCGGUUUAUUCUUAAUAUG
....(((((.(.((((((--(((((((((------((.(((.((.......)).)))...))))))).....)-----))..))))))).))))))........... ( -22.40)
>DroPer_CAF1 24111 104 + 1
ACACUGAACACAUUUGUUUAUUUACGAUCUGUUGCGGUUGUUGGUGUUCAAGAUACGCAGGAAAAUCGCUUUAGAUUAAGUGCCGCAUGUGGGCUAUU---AAUCGG
.....(..(((((.((..((((((..(((((..((((((....((((.......)))).....))))))..))))))))))).)).)))))..)....---...... ( -24.40)
>consensus
UCACUAAGCACACAUGUG__CUUACGCUU______UUUUGAUUGUGUUCAUGAUUCGCAUGAAAAUCAAUUUA_____AGUAGCGCAUGUGGCUUAUUC___AUAAA
....(((((.(((((((........(((...........(((((..((((((.....))))))...)))))..........)))))))))))))))........... ( -9.51 = -12.32 +   2.81)

alignment

secondary structure

dotplot

Window 6

Location	14,024,299 – 14,024,392
Length	93
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	71.19
Mean single sequence MFE	-22.50
Consensus MFE	-4.66
Energy contribution	-5.25
Covariance contribution	0.59
Combinations/Pair	1.23
Mean z-score	-2.32
Structure conservation index	0.21
SVM decision value	0.09
SVM RNA-class probability	0.580385
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14024299 93 - 23771897
UUUAU-UGGAA-AAGCCACAUGGGCUACA-----UAAAUUGAUUUUCAUGCGAAUCAUGAACACAAUCAAUA------AAGCGUAAGC-CACAUGUGAGCUUAGUGA
.....-.....-((((((((((((((((.-----...(((((((((((((.....))))))...))))))).------....)).)))-).)))))).))))..... ( -28.20)
>DroPse_CAF1 24101 104 - 1
CCGAUU---AAUAGCCCACAUGCGGCACUUAAUCUAAAGCGAUUUUCCUGCGUAUCUUGAACACCAACAACCGCAACAGAUCGUAAAUAAACAAAUGUGUUCAGUGU
..((((---((..((((....).)))..))))))....(((((((...((((....(((.....)))....))))..)))))))....................... ( -19.10)
>DroSec_CAF1 22871 93 - 1
UUUAU-GGGAAUAAGCCACAUGCGCUAUA-----UAAAUUGAUUUUCAUGCGAAUCAUGAACACAAUCAAAA------AAGCGUAAG--CACAUGUGAGCUUAGUGA
.....-.....(((((((((((.......-----....((((((((((((.....))))))...))))))..------..((....)--).)))))).))))).... ( -24.90)
>DroSim_CAF1 23475 93 - 1
UUUAU-GAGAAUAAGCCACAUGCGCUAUA-----UAAAUUGAUUUUCAUGCGAAUCAUGAACACAAUCAAAA------AAGCGUAAG--CACAUGUGAGCUUAGUGA
.....-.....(((((((((((.......-----....((((((((((((.....))))))...))))))..------..((....)--).)))))).))))).... ( -24.90)
>DroYak_CAF1 23583 94 - 1
CAUAUUAAGAAUAAACCGCAUGCGCUACU-----AAAAUUGGUUUUCAUGCGAAUCAUGAACAGAAUCGGAA------AAACCUAGG--CACAUGUGUGCUCAGUGA
...............(((((((....(((-----(....))))...)))))((.((.......)).))))..------...(((..(--(((....))))..)).). ( -18.80)
>DroPer_CAF1 24111 104 - 1
CCGAUU---AAUAGCCCACAUGCGGCACUUAAUCUAAAGCGAUUUUCCUGCGUAUCUUGAACACCAACAACCGCAACAGAUCGUAAAUAAACAAAUGUGUUCAGUGU
..((((---((..((((....).)))..))))))....(((((((...((((....(((.....)))....))))..)))))))....................... ( -19.10)
>consensus
CUUAU___GAAUAAGCCACAUGCGCUACA_____UAAAUUGAUUUUCAUGCGAAUCAUGAACACAAUCAAAA______AAGCGUAAG__CACAUGUGAGCUCAGUGA
................((((((..................(((((......))))).((........))......................)))))).......... ( -4.66 =  -5.25 +   0.59)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:42:14 2006