Locus 635

Sequence ID	3L_DroMel_CAF1
Location	1,879,891 – 1,880,020
Length	129
Max. P	0.870350

overview

Window 3

Location	1,879,891 – 1,879,988
Length	97
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	85.05
Mean single sequence MFE	-29.08
Consensus MFE	-19.94
Energy contribution	-21.26
Covariance contribution	1.32
Combinations/Pair	1.30
Mean z-score	-2.34
Structure conservation index	0.69
SVM decision value	0.87
SVM RNA-class probability	0.870350
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1879891 97 - 23771897
GAAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUCUGAUUUAUUUCCUUGGCUCCUAGACUACUGAAUUGCGAAUUCAGCAUUUCGCUGUUAGCUGGAG
..........(((((((((.(((((((((........))))))))).))))))))).(((((((...(((((........)))))..)))).))).. ( -34.70)
>DroSec_CAF1 2465 97 - 1
GAAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUCUAAUUUAUUUCCUUGGCUCUUAGACUACUGAACUGCGAAUUCAGCAUUUCGCUGUUAGCUGCAA
..........(((((((((.(((((((((........))))))))).)))))))))....((((...(((((........)))))..))))...... ( -29.80)
>DroSim_CAF1 2483 97 - 1
GAAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUCUGAUUUAUUUCCUUGGCUCUUAGACUACUGAACUGCGAAUUCAGCAUUUCGCUGUUAGCUGGAA
..........(((((((((.(((((((((........))))))))).))))))))).(((((((...(((((........)))))..)))).))).. ( -32.00)
>DroEre_CAF1 2406 96 - 1
GCAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUGUGCCUU-UUUCUCUGGUUCAUAGACUACUGAAUUCCGGACUUAGCAUUCCACUGCUAACUGCAA
((((.........((((.((((..(((..((((.(((..-.......))).)))).))).)))).))))....((((((......)))))))))).. ( -26.20)
>DroYak_CAF1 2480 97 - 1
GAAGGGAAAAUUAGGGGCUUAGUAAAUGAUAUCUGAUUUAUUUCCCCAGCUCUGAGACUAUUGAAUUCCGGAUACCGCAAUUCACUGCUAGCUGGUA
...((((((((((((...(((.....)))..)))))))..)))))((((((...((.(...((((((.(((...))).))))))..))))))))).. ( -22.70)
>consensus
GAAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUCUGAUUUAUUUCCUUGGCUCUUAGACUACUGAAUUGCGAAUUCAGCAUUUCGCUGUUAGCUGGAA
..........(((((((((.(((((((((........))))))))).)))))))))....((((...(((((........)))))..))))...... (-19.94 = -21.26 +   1.32)

alignment

secondary structure

dotplot

Window 4

Location	1,879,925 – 1,880,020
Length	95
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	78.18
Mean single sequence MFE	-26.07
Consensus MFE	-12.49
Energy contribution	-13.47
Covariance contribution	0.98
Combinations/Pair	1.27
Mean z-score	-2.12
Structure conservation index	0.48
SVM decision value	0.30
SVM RNA-class probability	0.679743
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 1879925 95 - 23771897
UAACGGCCAGUGGUUAACUUAUUGAACUUCUAGAAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUCUGAUUUAUUUCCUUGG-----------CUCCUAGACUACUG
.......((((((((...(((((...(((....))).))))).((((((((.(((((((((........))))))))).))-----------)))))))))))))) ( -33.40)
>DroSec_CAF1 2499 95 - 1
UAACGGUCAGUGGUUAACUUAUUGAACUUCUAGAAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUCUAAUUUAUUUCCUUGG-----------CUCUUAGACUACUG
.......((((((((...(((((...(((....))).))))).((((((((.(((((((((........))))))))).))-----------)))))))))))))) ( -30.50)
>DroSim_CAF1 2517 95 - 1
UAACGGUCAGUGGUUAACUUAUUGAACUUCUAGAAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUCUGAUUUAUUUCCUUGG-----------CUCUUAGACUACUG
.......((((((((...(((((...(((....))).))))).((((((((.(((((((((........))))))))).))-----------)))))))))))))) ( -30.50)
>DroEre_CAF1 2440 94 - 1
UAACGGUCAAUGGUUAACUUAUUGAACUUCUAGCAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUGUGCCUU-UUUCUCUGG-----------UUCAUAGACUACUG
....((((.((((((((....))))........((((((.....(((.((.((........)).)).))).-..)))))).-----------.)))).)))).... ( -17.70)
>DroYak_CAF1 2514 95 - 1
UAACGGUUAAUGGUUAACUUAUUGAACUUCUAGAAGGGAAAAUUAGGGGCUUAGUAAAUGAUAUCUGAUUUAUUUCCCCAG-----------CUCUGAGACUAUUG
.......((((((((............((((.....)))).....((((...(((((((........))))))).))))..-----------......)))))))) ( -16.40)
>DroAna_CAF1 2137 98 - 1
AGUUGGCUAAGACCCAGCUGAUUGAACUUCUAGAAGGGUUAAUUGGGGGCUUAGG--------CUUGAUUUAUUUCCAGAGAGAUAAAUUAAUUAUUAGCUGCCUG
(((((.(((((.(((..(..(((((.(((....)))..)))))..))))))))).--------)((((((((((((....)))))))))))).....))))..... ( -27.90)
>consensus
UAACGGUCAAUGGUUAACUUAUUGAACUUCUAGAAGGGAUAAUUAGGGGCUUAGGAAGUGAUAUCUGAUUUAUUUCCUUGG___________CUCUUAGACUACUG
.......((((((((.......(((.(((((((.........))))))).)))((((((((........)))))))).....................)))))))) (-12.49 = -13.47 +   0.98)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:17 2006