Locus 8418

Sequence ID	3L_DroMel_CAF1
Location	22,124,384 – 22,124,552
Length	168
Max. P	0.992965

overview

Window 6

Location	22,124,384 – 22,124,475
Length	91
Sequences	6
Columns	98
Reading direction	reverse
Mean pairwise identity	95.43
Mean single sequence MFE	-20.67
Consensus MFE	-19.02
Energy contribution	-18.88
Covariance contribution	-0.14
Combinations/Pair	1.04
Mean z-score	-1.32
Structure conservation index	0.92
SVM decision value	0.98
SVM RNA-class probability	0.893791
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22124384 91 - 23771897
GCC-------AUCUACGCAAUAUUCUGCAAUCAAGUGUGCAUAUUUACUUCCUGUAAUUGAGCAUUUAUGGCUUUUAUGGCCUAACGGAUUUGCCCGA
(((-------((....(((......)))..(((...((((.((.((((.....)))).)).))))...))).....)))))....(((......))). ( -19.50)
>DroSec_CAF1 110190 91 - 1
GCC-------AUCUACGCAAUAUUCUGCAAUCAAGUGUGCAUAUUUACUUCCUGUAAUUGAGCAUUUAUGGCUUUUAUGGCCUAACGGAUUUGCCCGU
(((-------((....(((......)))..(((...((((.((.((((.....)))).)).))))...))).....)))))...((((......)))) ( -19.90)
>DroSim_CAF1 118283 91 - 1
GCC-------AUCUACGCAAUAUUCUGCAAUCAAGUGUGCAUAUUUACUUCCUGUAAUUGAGCAUUUAUGGCUUUUAUGGCCUAACGGAUUUGCCCGU
(((-------((....(((......)))..(((...((((.((.((((.....)))).)).))))...))).....)))))...((((......)))) ( -19.90)
>DroEre_CAF1 109101 91 - 1
GCC-------AUCUACGCAAUAUUCUGCAAUCAAGUGUGCAUAUUUACUUCCUGUAAUUGAGCAUUUAUGGCUUUUAUGGCCUAACGGAUUUGCCCGU
(((-------((....(((......)))..(((...((((.((.((((.....)))).)).))))...))).....)))))...((((......)))) ( -19.90)
>DroYak_CAF1 152868 91 - 1
GCC-------AUCUACGCAAUAUUCUGCAAUCAAGUGUGCAUAUUUACUUCCUGUAAUUGAGCAUUUAUGGCUUUUAUGGCCUAACGGAUUUGCCCGU
(((-------((....(((......)))..(((...((((.((.((((.....)))).)).))))...))).....)))))...((((......)))) ( -19.90)
>DroAna_CAF1 127937 98 - 1
GCCAGCCGUAAUCUACGCAACAUUCUGCAAUCAAGUGUGCAUAUUUACUUCCUGUAAUUGAGCAUUUACGGCUUUUAUGGCCUAACGGAUUUGUCCCC
(((((((((((.....(((......)))........((((.((.((((.....)))).)).))))))))))).....)))).....(((....))).. ( -24.90)
>consensus
GCC_______AUCUACGCAAUAUUCUGCAAUCAAGUGUGCAUAUUUACUUCCUGUAAUUGAGCAUUUAUGGCUUUUAUGGCCUAACGGAUUUGCCCGU
................((((...((((.....((((((.((...((((.....)))).)).))))))..((((.....))))...)))).)))).... (-19.02 = -18.88 +  -0.14)

alignment

secondary structure

dotplot

Window 7

Location	22,124,442 – 22,124,552
Length	110
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	92.82
Mean single sequence MFE	-37.22
Consensus MFE	-30.70
Energy contribution	-30.62
Covariance contribution	-0.08
Combinations/Pair	1.11
Mean z-score	-1.58
Structure conservation index	0.82
SVM decision value	0.67
SVM RNA-class probability	0.818636
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22124442 110 + 23771897
GCACACUUGAUUGCAGAAUAUUGCGUAGAUGGCCAGGCCCUUGGUUCUGGCUUUUACUCAGUCUCUGGCUAAGACUCUGGCCUAAGCUAAGACUUGUCCUGGCCAAGUUG
....(((((....((((..((((.(((((.((((((..(....)..))))))))))).)))).))))((((.(((((((((....))).)))...))).))))))))).. ( -36.20)
>DroSec_CAF1 110248 110 + 1
GCACACUUGAUUGCAGAAUAUUGCGUAGAUGGCCAGGCCUUUGGUUCUGGCUUUUACUCAGUCUUUGGCUAAGACUCCGGUCUGAGCUGAGACUUGUCCUGGCCAAGUUG
.....((....(((((....))))).)).((((((((.(...((((..(((((..(((.((((((.....))))))..)))..)))))..)))).).))))))))..... ( -37.20)
>DroSim_CAF1 118341 110 + 1
GCACACUUGAUUGCAGAAUAUUGCGUAGAUGGCCAGGCCUUUGGUUCUGGCUUUUACUCAGUCUUUGGCUAAGACUCCGGUCUGAGCUGAGACUUGUCCUGGCCAAGUUG
.....((....(((((....))))).)).((((((((.(...((((..(((((..(((.((((((.....))))))..)))..)))))..)))).).))))))))..... ( -37.20)
>DroEre_CAF1 109159 110 + 1
GCACACUUGAUUGCAGAAUAUUGCGUAGAUGGCCAGGCCUUUGGUUCUGGCUUUUACGCAGUCUCGGGCUAAGACUGCGGCCUCAACUGAGACUUGUCCUGGCCAAGUUG
(((........))).((..((((((((((.(((((((((...)).))))))))))))))))).)).(((((.(((...((.(((....))).)).))).)))))...... ( -40.00)
>DroYak_CAF1 152926 110 + 1
GCACACUUGAUUGCAGAAUAUUGCGUAGAUGGCCAGGCCUUGGGUUCUGGCUUUUACUCAGUCUCUGGCUCAGACUGCAGCUUUCGCAGAGACUUGUCCUGGUCAAGUUG
....(((((((..(((.(((.((.(((((.(((((((((...)).)))))))))))).))(((((((((((.....).))).....))))))).))).)))))))))).. ( -35.50)
>consensus
GCACACUUGAUUGCAGAAUAUUGCGUAGAUGGCCAGGCCUUUGGUUCUGGCUUUUACUCAGUCUCUGGCUAAGACUCCGGCCUGAGCUGAGACUUGUCCUGGCCAAGUUG
....(((((....((((..((((.(((((.((((((..(....)..))))))))))).)))).))))((((.(((..((((....))))......))).))))))))).. (-30.70 = -30.62 +  -0.08)

alignment

secondary structure

dotplot

Window 8

Location	22,124,442 – 22,124,552
Length	110
Sequences	5
Columns	110
Reading direction	reverse
Mean pairwise identity	92.82
Mean single sequence MFE	-34.38
Consensus MFE	-29.26
Energy contribution	-29.46
Covariance contribution	0.20
Combinations/Pair	1.07
Mean z-score	-2.16
Structure conservation index	0.85
SVM decision value	2.36
SVM RNA-class probability	0.992965
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22124442 110 - 23771897
CAACUUGGCCAGGACAAGUCUUAGCUUAGGCCAGAGUCUUAGCCAGAGACUGAGUAAAAGCCAGAACCAAGGGCCUGGCCAUCUACGCAAUAUUCUGCAAUCAAGUGUGC
..(((((((((((((.((((((.(((.((((....)))).)))..))))))..)).....((........)).)))))))......(((......)))....)))).... ( -34.20)
>DroSec_CAF1 110248 110 - 1
CAACUUGGCCAGGACAAGUCUCAGCUCAGACCGGAGUCUUAGCCAAAGACUGAGUAAAAGCCAGAACCAAAGGCCUGGCCAUCUACGCAAUAUUCUGCAAUCAAGUGUGC
..((((((((((.((.(((((..(((.((((....)))).)))...)))))..))....(((.........)))))))))......(((......)))....)))).... ( -32.60)
>DroSim_CAF1 118341 110 - 1
CAACUUGGCCAGGACAAGUCUCAGCUCAGACCGGAGUCUUAGCCAAAGACUGAGUAAAAGCCAGAACCAAAGGCCUGGCCAUCUACGCAAUAUUCUGCAAUCAAGUGUGC
..((((((((((.((.(((((..(((.((((....)))).)))...)))))..))....(((.........)))))))))......(((......)))....)))).... ( -32.60)
>DroEre_CAF1 109159 110 - 1
CAACUUGGCCAGGACAAGUCUCAGUUGAGGCCGCAGUCUUAGCCCGAGACUGCGUAAAAGCCAGAACCAAAGGCCUGGCCAUCUACGCAAUAUUCUGCAAUCAAGUGUGC
..((((((.(((((..((((((.((((((((....))))))))..))))))(((((...(((((..(....)..)))))....)))))....)))))...)))))).... ( -40.20)
>DroYak_CAF1 152926 110 - 1
CAACUUGACCAGGACAAGUCUCUGCGAAAGCUGCAGUCUGAGCCAGAGACUGAGUAAAAGCCAGAACCCAAGGCCUGGCCAUCUACGCAAUAUUCUGCAAUCAAGUGUGC
..((((((.(((((..(((((((((....)).((.......)).)))))))..(((...(((((..(....)..)))))....)))......)))))...)))))).... ( -32.30)
>consensus
CAACUUGGCCAGGACAAGUCUCAGCUCAGGCCGGAGUCUUAGCCAGAGACUGAGUAAAAGCCAGAACCAAAGGCCUGGCCAUCUACGCAAUAUUCUGCAAUCAAGUGUGC
..((((((((((.((.(((((..(((.((((....)))).)))...)))))..))....(((.........)))))))))......(((......)))....)))).... (-29.26 = -29.46 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:52 2006