Locus 2465

Sequence ID	X_DroMel_CAF1
Location	6,581,044 – 6,581,182
Length	138
Max. P	0.970759

overview

Window 6

Location	6,581,044 – 6,581,156
Length	112
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	89.38
Mean single sequence MFE	-31.30
Consensus MFE	-26.45
Energy contribution	-27.09
Covariance contribution	0.64
Combinations/Pair	1.03
Mean z-score	-1.98
Structure conservation index	0.85
SVM decision value	1.66
SVM RNA-class probability	0.970759
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6581044 112 - 22224390
UUUGCGAUAUAUGUAUGUAUAUAUUUUGCAAAAA--------GGCGGCGAACAAAGAGCCAGGCGACAUGUGGCAUCAACUAAUUGUUGUCAUAUCCAUUGUUGUACCUGCUCGGGCGCC
(((((((.((((((....)))))).)))))))..--------...((((..(...((((.(((((((((((((((.(((....))).))))))).....)))))..))))))))..)))) ( -35.60)
>DroSec_CAF1 25423 102 - 1
UUUGCAAUAU----------CUAUUUUGCAAAAA--------GACGGCGAACAAAGAGCCAGGCGACAUGUGGCAUCAACUAAUUGUUGUCAUAUCCAUUGUUGUACCUGCUCGGGCGCC
(((((((...----------.....)))))))..--------...((((..(...((((.(((((((((((((((.(((....))).))))))).....)))))..))))))))..)))) ( -32.10)
>DroSim_CAF1 37468 102 - 1
UUUGCAAUAU----------CUAUUUUGCAAAAA--------GGCGGCGAACAAAGAGCCAGGCGACAUGUGGCAUCAACUAAUUGUUGUCAUAUCCAUUGUUGUACCUGCUCGGGCGCC
(((((((...----------.....)))))))..--------...((((..(...((((.(((((((((((((((.(((....))).))))))).....)))))..))))))))..)))) ( -32.10)
>DroEre_CAF1 24751 101 - 1
UUUGCAAUAU----------CUAUUUUGCACAA---------GGCAGCGAACAAAGAGCGAGGCGACAUGUGGCAUCAACUAAUUGUUGUCAUAUCCAUUGUUGUACCUGCUCGGGCGCC
..(((((...----------.....)))))...---------....(((..(...(((((..(((((((((((((.(((....))).))))))).....))))))...))))))..))). ( -28.00)
>DroYak_CAF1 36055 110 - 1
UUUGCAAUAU----------CUAUUUUGCAAAUAACGACAGCGACAACGAACAAAGAGCCAGGCGACAUGUGGCAUCAACUAAUUGUUGUCAUAUCCAUUGUUGUAACUGCUCGGGCGCC
(((((((...----------.....)))))))...((((((..(((((((...........(....)((((((((.(((....))).))))))))...)))))))..))).)))...... ( -28.70)
>consensus
UUUGCAAUAU__________CUAUUUUGCAAAAA________GGCGGCGAACAAAGAGCCAGGCGACAUGUGGCAUCAACUAAUUGUUGUCAUAUCCAUUGUUGUACCUGCUCGGGCGCC
(((((((..................))))))).............((((..(...((((...(((((((((((((.(((....))).))))))).....))))))....)))))..)))) (-26.45 = -27.09 +   0.64)

alignment

secondary structure

dotplot

Window 7

Location	6,581,084 – 6,581,182
Length	98
Sequences	4
Columns	100
Reading direction	reverse
Mean pairwise identity	89.22
Mean single sequence MFE	-22.10
Consensus MFE	-15.76
Energy contribution	-16.32
Covariance contribution	0.56
Combinations/Pair	1.04
Mean z-score	-1.59
Structure conservation index	0.71
SVM decision value	0.01
SVM RNA-class probability	0.539457
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 6581084 98 - 22224390
AAAGCAA--AACAAGUGCUUUUGGGCAUUUUGCGAUAUAUGUAUGUAUAUAUUUUGCAAAAAGGCGGCGAACAAAGAGCCAGGCGACAUGUGGCAUCAAC
...((..--.(((.((((((....((.((((((((.((((((....)))))).))))))))..))(((.........))))))).)).))).))...... ( -26.60)
>DroSec_CAF1 25463 89 - 1
AAAGCAAA-AACAAGUGCUUUUGGGCAUUUUGCAAUAU----------CUAUUUUGCAAAAAGACGGCGAACAAAGAGCCAGGCGACAUGUGGCAUCAAC
...((...-.(((.((((((.......((((((((...----------.....))))))))....(((.........))))))).)).))).))...... ( -20.40)
>DroSim_CAF1 37508 90 - 1
AAAGCAAAAAACAAGUGCUUUUGGGCAUUUUGCAAUAU----------CUAUUUUGCAAAAAGGCGGCGAACAAAGAGCCAGGCGACAUGUGGCAUCAAC
...((.....(((.((((((....((.((((((((...----------.....))))))))..))(((.........))))))).)).))).))...... ( -21.80)
>DroEre_CAF1 24791 87 - 1
AAAGCAA--AACAAGUGGUUUUGGGCAUUUUGCAAUAU----------CUAUUUUGCACAA-GGCAGCGAACAAAGAGCGAGGCGACAUGUGGCAUCAAC
...((..--.(((.((.(((((..((.((.(((((...----------.....))))).))-.)).((.........))))))).)).))).))...... ( -19.60)
>consensus
AAAGCAA__AACAAGUGCUUUUGGGCAUUUUGCAAUAU__________CUAUUUUGCAAAAAGGCGGCGAACAAAGAGCCAGGCGACAUGUGGCAUCAAC
...((.....(((.((((((...(.(.((((((((..................)))))))).).)(((.........))))))).)).))).))...... (-15.76 = -16.32 +   0.56)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:25 2006