Locus 2245

Sequence ID	3L_DroMel_CAF1
Location	6,230,979 – 6,231,074
Length	95
Max. P	0.994041

overview

Window 1

Location	6,230,979 – 6,231,074
Length	95
Sequences	6
Columns	110
Reading direction	forward
Mean pairwise identity	78.14
Mean single sequence MFE	-28.63
Consensus MFE	-14.37
Energy contribution	-14.57
Covariance contribution	0.20
Combinations/Pair	1.26
Mean z-score	-2.67
Structure conservation index	0.50
SVM decision value	1.45
SVM RNA-class probability	0.955283
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6230979 95 + 23771897
CUAGAGAUCUAUAUACUCUCUU---UUUGGUACUCUCUUCU------------CAGAGAGUCGGCUUUAAAGAGUGCAAUCAGCUGUUUUUGAUUUGGCUUAAAGCCAAA
.(((((((.........(((((---(..((((((((((...------------.)))))))..)))..)))))).((.....)).))))))).((((((.....)))))) ( -25.40)
>DroSec_CAF1 21180 97 + 1
CGAGAUAUCUAUAGCCUCUCUUU-UUUUGUUACUCUCUUUU------------CAGAGAGUCGGCUUUAAAGAGCGCAAUCAGCUGUUUUCGAUUUGGCUUAAAGCCAAA
(((((.....((((((.((((((-....((((((((((...------------.))))))).)))...)))))).)......)))))))))).((((((.....)))))) ( -27.20)
>DroSim_CAF1 21670 98 + 1
CGAGAGAUCUUUAGCCUCUCUUUUUUUUGUUACUCUCUUUU------------CAGAGAGUCGGCUUUAAAGAGCGCAAUCAGCUGUUUUCGAUUUGGCUUAAAGCCAAA
((((((..((...((..((((((.....((((((((((...------------.))))))).)))...)))))).))....))...)))))).((((((.....)))))) ( -26.70)
>DroEre_CAF1 22602 95 + 1
CGAAA-AUCUGUAGCCUCUCUUU--UUUGGUACUCUCUUUU------------CAGAGAGUCGGCUUUCAAGAGGGCAAUCAGCUGUUUUCGAUUUGGCUUAAAGCCAGA
(((((-(((((..(((.(((((.--...((((((((((...------------.)))))))..)))...))))))))...)))..))))))).((((((.....)))))) ( -34.80)
>DroYak_CAF1 21424 96 + 1
UGAAAGAUCUGUAGCUUAUCUUU--UUUGAUACUCUCUUUU------------CAGAGAGUCGGCUUUAAAGAGUGUAAUCAGCUGUUUUCGAUUUGGCUUAAAGCCAAA
.(((((..(((..((...(((((--...(..(((((((...------------.)))))))...)...)))))..))...)))...)))))..((((((.....)))))) ( -25.20)
>DroAna_CAF1 22899 108 + 1
GGGAGAGUCUGCAGCCUCUCGUU--UUGAACCUGCUCUUUCUACCAGCUGUGACUGAGAGCCGGCUUUGUUCAGUUUAAUCAGCUGAUUCGGUUUUGGCCUUAAGCGCGA
.((((((...((((..((.....--..))..)))).))))))......((((..((((.(((((..(((.((((((.....))))))..)))..)))))))))..)))). ( -32.50)
>consensus
CGAAAGAUCUGUAGCCUCUCUUU__UUUGAUACUCUCUUUU____________CAGAGAGUCGGCUUUAAAGAGUGCAAUCAGCUGUUUUCGAUUUGGCUUAAAGCCAAA
(((((..........................(((((((................)))))))(((((...............))))).))))).((((((.....)))))) (-14.37 = -14.57 +   0.20)

alignment

secondary structure

dotplot

Window 2

Location	6,230,979 – 6,231,074
Length	95
Sequences	6
Columns	110
Reading direction	reverse
Mean pairwise identity	78.14
Mean single sequence MFE	-28.85
Consensus MFE	-13.87
Energy contribution	-15.87
Covariance contribution	2.00
Combinations/Pair	1.05
Mean z-score	-3.66
Structure conservation index	0.48
SVM decision value	2.45
SVM RNA-class probability	0.994041
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6230979 95 - 23771897
UUUGGCUUUAAGCCAAAUCAAAAACAGCUGAUUGCACUCUUUAAAGCCGACUCUCUG------------AGAAGAGAGUACCAAA---AAGAGAGUAUAUAGAUCUCUAG
..((((((((((...(((((........)))))......))))))))))(((((((.------------...)))))))......---.(((((.........))))).. ( -26.40)
>DroSec_CAF1 21180 97 - 1
UUUGGCUUUAAGCCAAAUCGAAAACAGCUGAUUGCGCUCUUUAAAGCCGACUCUCUG------------AAAAGAGAGUAACAAAA-AAAGAGAGGCUAUAGAUAUCUCG
..((((((((((((((.(((........)))))).)))...))))))))(((((((.------------...))))))).......-...((((..(....)...)))). ( -28.90)
>DroSim_CAF1 21670 98 - 1
UUUGGCUUUAAGCCAAAUCGAAAACAGCUGAUUGCGCUCUUUAAAGCCGACUCUCUG------------AAAAGAGAGUAACAAAAAAAAGAGAGGCUAAAGAUCUCUCG
..((((((((((((((.(((........)))))).)))...))))))))(((((((.------------...)))))))...........(((((((....).)))))). ( -32.00)
>DroEre_CAF1 22602 95 - 1
UCUGGCUUUAAGCCAAAUCGAAAACAGCUGAUUGCCCUCUUGAAAGCCGACUCUCUG------------AAAAGAGAGUACCAAA--AAAGAGAGGCUACAGAU-UUUCG
..((((.....))))...((((((...(((...((((((((........(((((((.------------...)))))))......--.))))).)))..))).)-))))) ( -34.86)
>DroYak_CAF1 21424 96 - 1
UUUGGCUUUAAGCCAAAUCGAAAACAGCUGAUUACACUCUUUAAAGCCGACUCUCUG------------AAAAGAGAGUAUCAAA--AAAGAUAAGCUACAGAUCUUUCA
((((((.....))))))..((((....(((.......(((((.......(((((((.------------...)))))))......--))))).......)))...)))). ( -24.66)
>DroAna_CAF1 22899 108 - 1
UCGCGCUUAAGGCCAAAACCGAAUCAGCUGAUUAAACUGAACAAAGCCGGCUCUCAGUCACAGCUGGUAGAAAGAGCAGGUUCAA--AACGAGAGGCUGCAGACUCUCCC
....((((..((......))..((((((((.....(((((....((....)).)))))..)))))))).....))))........--...(((((........))))).. ( -26.30)
>consensus
UUUGGCUUUAAGCCAAAUCGAAAACAGCUGAUUGCACUCUUUAAAGCCGACUCUCUG____________AAAAGAGAGUAACAAA__AAAGAGAGGCUACAGAUCUCUCG
((((((.....))))))..........(((......(((((........(((((((................))))))).........)))))......)))........ (-13.87 = -15.87 +   2.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:27:41 2006