Locus 854

Sequence ID	2L_DroMel_CAF1
Location	2,439,340 – 2,439,446
Length	106
Max. P	0.913935

overview

Window 8

Location	2,439,340 – 2,439,446
Length	106
Sequences	6
Columns	117
Reading direction	forward
Mean pairwise identity	82.04
Mean single sequence MFE	-38.88
Consensus MFE	-26.01
Energy contribution	-26.23
Covariance contribution	0.22
Combinations/Pair	1.09
Mean z-score	-1.48
Structure conservation index	0.67
SVM decision value	-0.02
SVM RNA-class probability	0.525277
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2439340 106 + 22407834
----UUGGUCGCUGGG-------UGCCUGUUGCCUUGUGGCUCUUGCCUGUUGCUUGGCCAGCGUUUUGUUUGAUGUCGGCCUCGUUAAGAGCCAACGAAGCCAGCGAGCUGAGAUG
----..(.(((((((.-------(((.....)).((((((((((((......((..((((.(((((......))))).))))..)))))))))).))))).))))))).)....... ( -40.50)
>DroSec_CAF1 18497 106 + 1
----UUGGUCGCUGGG-------UGCCUGUUGCCUUGUGGCUCUUGCCUGCUGCUUGGCCAGCGUUUUGUUUGAUGUCGGCCUCGUUAAGAGCCAACGAAGCCAGCGAGCUGAGAUG
----..(.(((((((.-------(((.....)).((((((((((((......((..((((.(((((......))))).))))..)))))))))).))))).))))))).)....... ( -40.50)
>DroSim_CAF1 18532 106 + 1
----UUGGUCGCUGGG-------UGCCUGUUGCCUUGUGGCUCUUGCCUGCUGCUUGGCCAGCGUUUUGUUUGAUGUCGGCCUCGUUAAGAGCCAACGAAGCCAGCGAGCUGAGAUG
----..(.(((((((.-------(((.....)).((((((((((((......((..((((.(((((......))))).))))..)))))))))).))))).))))))).)....... ( -40.50)
>DroEre_CAF1 20189 92 + 1
----UUGGUCGCUGGC-------UGCCUGUUGC--------------CUGUUGCCUGGCCAGCGUUUUGUUUGAUGUCGGCCUCGUUAAGAGCCAACGAAGCCAGCGAGCUGAGAUG
----..(.((((((((-------(...(((((.--------------((.((((..((((.(((((......))))).))))..).))).)).))))).))))))))).)....... ( -40.00)
>DroWil_CAF1 30367 89 + 1
GUUUCUGAUCUCUGGG-------UCUCUGUGGC--------------CUGU----GGUCCAACGUUUUGUUUGAUGUCGGCCUCGUUAAGAGCCAACGAAGCCAACGAGUAAAG---
....((...(((..((-------..((..((((--------------((..----((.((.(((((......))))).))))......)).))))..))..))...)))...))--- ( -23.70)
>DroYak_CAF1 19650 113 + 1
----UUGGUCGCUGGCUGCUGGCUGCCUGUUGCCUUGUGACUCUGGCCUGUUGCUUGGCCAGCGUUUUGUUUGAUGUCGGCCUCGUUAAGAGCCAACGAAGCCAGCGAGCUGAGAUG
----..(.(((((((((..((((((((.((..(...)..))...)))((...((..((((.(((((......))))).))))..))..)))))))....))))))))).)....... ( -48.10)
>consensus
____UUGGUCGCUGGG_______UGCCUGUUGCCUUGUGGCUCUUGCCUGUUGCUUGGCCAGCGUUUUGUUUGAUGUCGGCCUCGUUAAGAGCCAACGAAGCCAGCGAGCUGAGAUG
......(.(((((((.........................................((((.(((((......))))).))))(((((.......)))))..))))))).)....... (-26.01 = -26.23 +   0.22)

alignment

secondary structure

dotplot

Window 9

Location	2,439,340 – 2,439,446
Length	106
Sequences	6
Columns	117
Reading direction	reverse
Mean pairwise identity	82.04
Mean single sequence MFE	-35.92
Consensus MFE	-24.25
Energy contribution	-25.03
Covariance contribution	0.78
Combinations/Pair	1.09
Mean z-score	-3.10
Structure conservation index	0.68
SVM decision value	1.09
SVM RNA-class probability	0.913935
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2439340 106 - 22407834
CAUCUCAGCUCGCUGGCUUCGUUGGCUCUUAACGAGGCCGACAUCAAACAAAACGCUGGCCAAGCAACAGGCAAGAGCCACAAGGCAACAGGCA-------CCCAGCGACCAA----
.......(.(((((((....(((((((........)))))))............(((.(((........)))....(((....)))....))).-------.))))))).)..---- ( -35.10)
>DroSec_CAF1 18497 106 - 1
CAUCUCAGCUCGCUGGCUUCGUUGGCUCUUAACGAGGCCGACAUCAAACAAAACGCUGGCCAAGCAGCAGGCAAGAGCCACAAGGCAACAGGCA-------CCCAGCGACCAA----
.......(.(((((((....(((((((........)))))))............(((.(((........)))....(((....)))....))).-------.))))))).)..---- ( -35.10)
>DroSim_CAF1 18532 106 - 1
CAUCUCAGCUCGCUGGCUUCGUUGGCUCUUAACGAGGCCGACAUCAAACAAAACGCUGGCCAAGCAGCAGGCAAGAGCCACAAGGCAACAGGCA-------CCCAGCGACCAA----
.......(.(((((((....(((((((........)))))))............(((.(((........)))....(((....)))....))).-------.))))))).)..---- ( -35.10)
>DroEre_CAF1 20189 92 - 1
CAUCUCAGCUCGCUGGCUUCGUUGGCUCUUAACGAGGCCGACAUCAAACAAAACGCUGGCCAGGCAACAG--------------GCAACAGGCA-------GCCAGCGACCAA----
.......(.(((((((((..(((((((........)))))))............(((.(((.(....).)--------------))....))))-------)))))))).)..---- ( -38.20)
>DroWil_CAF1 30367 89 - 1
---CUUUACUCGUUGGCUUCGUUGGCUCUUAACGAGGCCGACAUCAAACAAAACGUUGGACC----ACAG--------------GCCACAGAGA-------CCCAGAGAUCAGAAAC
---.....((((((((((((((((.....)))))))))))))............((.((.((----...)--------------))))).))).-------................ ( -26.00)
>DroYak_CAF1 19650 113 - 1
CAUCUCAGCUCGCUGGCUUCGUUGGCUCUUAACGAGGCCGACAUCAAACAAAACGCUGGCCAAGCAACAGGCCAGAGUCACAAGGCAACAGGCAGCCAGCAGCCAGCGACCAA----
.......(.(((((((((..(((((((........)))))))............((((((...((.....(((..........))).....)).))))))))))))))).)..---- ( -46.00)
>consensus
CAUCUCAGCUCGCUGGCUUCGUUGGCUCUUAACGAGGCCGACAUCAAACAAAACGCUGGCCAAGCAACAGGCAAGAGCCACAAGGCAACAGGCA_______CCCAGCGACCAA____
...........(.(((((((((((.....))))))))))).)...........((((((..........(((....))).....((.....)).........))))))......... (-24.25 = -25.03 +   0.78)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:15 2006