Locus 2605

Sequence ID	2L_DroMel_CAF1
Location	7,205,843 – 7,205,936
Length	93
Max. P	0.932837

overview

Window 2

Location	7,205,843 – 7,205,936
Length	93
Sequences	5
Columns	104
Reading direction	forward
Mean pairwise identity	87.11
Mean single sequence MFE	-22.54
Consensus MFE	-15.88
Energy contribution	-16.96
Covariance contribution	1.08
Combinations/Pair	1.06
Mean z-score	-2.72
Structure conservation index	0.70
SVM decision value	1.22
SVM RNA-class probability	0.932837
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7205843 93 + 22407834
UUGGUGUUAUGUAUU-----------AUUAUGUAUUAUCCCAUUUUACUAAUGAAGUUUAACCUUGACUUUUAUACGGUUUCGCACUGUAUAAUCGUGUAAGGU
((((((..(((...(-----------(........))...)))..)))))).........((((((((..(((((((((.....)))))))))..)).)))))) ( -19.50)
>DroSec_CAF1 23448 90 + 1
UUGGUGUUAUGUAU--------------UAUGUAUUAUCCCAUUUUACUAAUGAAGUUUAACCUUGACUUUUAUACGGUUUCGCACUGUAUAAGAGUGUAAGGU
((((((..(((...--------------((.....))...)))..)))))).........(((((((((((((((((((.....))))))))))))).)))))) ( -24.50)
>DroSim_CAF1 36676 90 + 1
UUGGUGUUAUGUAU--------------UAUGUAUUAUCCCAUUUUACUAAUGAAGUUUAACCUUGACUUUUAUACGGUUUCGCACUGUAUAAGAGUGUAAGGU
((((((..(((...--------------((.....))...)))..)))))).........(((((((((((((((((((.....))))))))))))).)))))) ( -24.50)
>DroEre_CAF1 48748 103 + 1
UUGGUUUUAUGUAUUAUGU-UAAUGUAUUAUGUAUUAUCCCUUUUUACUAAUGAAGUUUAACCUUGGCUUUUAUACGGUUUCGCACUGUAUAAUAGUGAAAGGU
..(((..((((((.(((..-....))).))))))..))).((((((((((..((((((.......))))))((((((((.....)))))))).)))))))))). ( -22.70)
>DroYak_CAF1 39080 104 + 1
UUGGUGUUAUGUUUUAUGUAUUAUGUAUUAUAUAUUAUCCCUUUUUACUAAUGAAGUUUAACCUUGACUCUUAUACGGUUACGCACUGUAUAAUAGUGAAAGGU
..((((.(((((..(((((...)))))..))))).)))).((((((((((....((((.......)))).(((((((((.....))))))))))))))))))). ( -21.50)
>consensus
UUGGUGUUAUGUAUU___________AUUAUGUAUUAUCCCAUUUUACUAAUGAAGUUUAACCUUGACUUUUAUACGGUUUCGCACUGUAUAAUAGUGUAAGGU
..((((.((((((.(((.......))).)))))).)))).....................(((((((((.(((((((((.....))))))))).))).)))))) (-15.88 = -16.96 +   1.08)

alignment

secondary structure

dotplot

Window 3

Location	7,205,843 – 7,205,936
Length	93
Sequences	5
Columns	104
Reading direction	reverse
Mean pairwise identity	87.11
Mean single sequence MFE	-12.78
Consensus MFE	-9.84
Energy contribution	-10.24
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-1.50
Structure conservation index	0.77
SVM decision value	-0.00
SVM RNA-class probability	0.531671
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7205843 93 - 22407834
ACCUUACACGAUUAUACAGUGCGAAACCGUAUAAAAGUCAAGGUUAAACUUCAUUAGUAAAAUGGGAUAAUACAUAAU-----------AAUACAUAACACCAA
(((((..((..((((((.((.....)).))))))..)).))))).....((((((.....))))))............-----------............... ( -11.40)
>DroSec_CAF1 23448 90 - 1
ACCUUACACUCUUAUACAGUGCGAAACCGUAUAAAAGUCAAGGUUAAACUUCAUUAGUAAAAUGGGAUAAUACAUA--------------AUACAUAACACCAA
(((((..(((.((((((.((.....)).)))))).))).)))))............(((..(((........))).--------------.))).......... ( -14.00)
>DroSim_CAF1 36676 90 - 1
ACCUUACACUCUUAUACAGUGCGAAACCGUAUAAAAGUCAAGGUUAAACUUCAUUAGUAAAAUGGGAUAAUACAUA--------------AUACAUAACACCAA
(((((..(((.((((((.((.....)).)))))).))).)))))............(((..(((........))).--------------.))).......... ( -14.00)
>DroEre_CAF1 48748 103 - 1
ACCUUUCACUAUUAUACAGUGCGAAACCGUAUAAAAGCCAAGGUUAAACUUCAUUAGUAAAAAGGGAUAAUACAUAAUACAUUA-ACAUAAUACAUAAAACCAA
.(((((.((((((((((.((.....)).)))))).(((....))).........))))..)))))...................-................... ( -12.40)
>DroYak_CAF1 39080 104 - 1
ACCUUUCACUAUUAUACAGUGCGUAACCGUAUAAGAGUCAAGGUUAAACUUCAUUAGUAAAAAGGGAUAAUAUAUAAUACAUAAUACAUAAAACAUAACACCAA
.(((((.((((......(((...(((((.............))))).)))....))))..)))))....................................... ( -12.12)
>consensus
ACCUUACACUAUUAUACAGUGCGAAACCGUAUAAAAGUCAAGGUUAAACUUCAUUAGUAAAAUGGGAUAAUACAUAAU___________AAUACAUAACACCAA
(((((..(((.((((((.((.....)).)))))).))).)))))............................................................ ( -9.84 = -10.24 +   0.40)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:31:46 2006