Locus 2775

Sequence ID	2L_DroMel_CAF1
Location	7,852,654 – 7,852,745
Length	91
Max. P	0.629498

overview

Window 1

Location	7,852,654 – 7,852,745
Length	91
Sequences	5
Columns	107
Reading direction	forward
Mean pairwise identity	77.28
Mean single sequence MFE	-18.00
Consensus MFE	-6.22
Energy contribution	-7.22
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-1.81
Structure conservation index	0.35
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7852654 91 + 22407834
UACUGUGUGUCAACAGU-------AACCAAUCAAGUAUUUAGUUUACUUGGUAACGGUUGCUCUUGUUU---------GUUAUUAUUUAAACAAAUUUGCUAUUUAC
.(((((......)))))-------((((.((((((((.......))))))))...))))((....((((---------(((........)))))))..))....... ( -20.70)
>DroSec_CAF1 24782 100 + 1
UACUUUGUGUCAACAGU-------AACCAAUCAAGUAUUAAGUUUACUUGGUAACGGUUGCUCUUGUUUGGCUUUGCAGUUAUUAUUUAACCAAAUUUCUUAUUUAC
...((((.(((((((((-------((((.((((((((.......))))))))...))))))...)).)))))......((((.....))))))))............ ( -19.50)
>DroSim_CAF1 26723 104 + 1
UACUUUGUGUCAACAGUAAACAGUAAACAAUCAAGUAUUA-GUUUACUUGGUAACUGUUACUCUUGCUUGACUUAGCAGUUAUUAUUUAAACAAAUUUCCUAUUA--
(((((..(((..((........))..)))...)))))...-(((((..((((((((((((.((......))..))))))))))))..))))).............-- ( -21.10)
>DroEre_CAF1 24951 88 + 1
UACUUUGUGUCAACAGU-------AACCAAUCAAAUAUUUAGUUUACUUGGUAACGGUUGCCCUUGUUUAACUU------------GCAACAAAAUGUCCUAUUUAC
...(((((..((((.((-------.(((((..((((.....))))..))))).)).))))....(((.......------------))))))))............. ( -12.30)
>DroYak_CAF1 25430 88 + 1
UACUUUGUGUCAACAGU-------UACCAAUCAAAUAUUUAGUUUACUUGGUAACGGUUGCCGUUGUUUAACUU------------UUAACAAAAUUUCCUGUUUCC
........(.((((.((-------((((((..((((.....))))..)))))))).)))).).(((((......------------..))))).............. ( -16.40)
>consensus
UACUUUGUGUCAACAGU_______AACCAAUCAAGUAUUUAGUUUACUUGGUAACGGUUGCUCUUGUUUAACUU____GUUAUUAUUUAACCAAAUUUCCUAUUUAC
.....(((....))).........((((.((((((((.......))))))))...))))................................................ ( -6.22 =  -7.22 +   1.00)

alignment

secondary structure

dotplot

Window 2

Location	7,852,654 – 7,852,745
Length	91
Sequences	5
Columns	107
Reading direction	reverse
Mean pairwise identity	77.28
Mean single sequence MFE	-17.93
Consensus MFE	-6.10
Energy contribution	-6.22
Covariance contribution	0.12
Combinations/Pair	1.12
Mean z-score	-1.89
Structure conservation index	0.34
SVM decision value	0.20
SVM RNA-class probability	0.629498
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7852654 91 - 22407834
GUAAAUAGCAAAUUUGUUUAAAUAAUAAC---------AAACAAGAGCAACCGUUACCAAGUAAACUAAAUACUUGAUUGGUU-------ACUGUUGACACACAGUA
.......((...((((((........)))---------)))(((.((.(((((....((((((.......))))))..)))))-------.)).))).......)). ( -16.60)
>DroSec_CAF1 24782 100 - 1
GUAAAUAAGAAAUUUGGUUAAAUAAUAACUGCAAAGCCAAACAAGAGCAACCGUUACCAAGUAAACUUAAUACUUGAUUGGUU-------ACUGUUGACACAAAGUA
............(((((((...............)))))))(((.((.(((((....((((((.......))))))..)))))-------.)).))).......... ( -17.96)
>DroSim_CAF1 26723 104 - 1
--UAAUAGGAAAUUUGUUUAAAUAAUAACUGCUAAGUCAAGCAAGAGUAACAGUUACCAAGUAAAC-UAAUACUUGAUUGUUUACUGUUUACUGUUGACACAAAGUA
--..........(((((............((((......))))...((((((((.....(((((((-............)))))))....)))))).)))))))... ( -18.60)
>DroEre_CAF1 24951 88 - 1
GUAAAUAGGACAUUUUGUUGC------------AAGUUAAACAAGGGCAACCGUUACCAAGUAAACUAAAUAUUUGAUUGGUU-------ACUGUUGACACAAAGUA
((.((((((((...(((((..------------......)))))((....)))))(((((.((((.......)))).))))).-------.))))).))........ ( -16.80)
>DroYak_CAF1 25430 88 - 1
GGAAACAGGAAAUUUUGUUAA------------AAGUUAAACAACGGCAACCGUUACCAAGUAAACUAAAUAUUUGAUUGGUA-------ACUGUUGACACAAAGUA
(....).....(((((((...------------..(((....)))(.((((.((((((((.((((.......)))).))))))-------)).)))).)))))))). ( -19.70)
>consensus
GUAAAUAGGAAAUUUGGUUAAAUAAUAAC____AAGUCAAACAAGAGCAACCGUUACCAAGUAAACUAAAUACUUGAUUGGUU_______ACUGUUGACACAAAGUA
.........................................(((.((.(((((....((((((.......))))))..)))))........)).))).......... ( -6.10 =  -6.22 +   0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:56 2006