Locus 1491

Sequence ID	2L_DroMel_CAF1
Location	4,003,317 – 4,003,418
Length	101
Max. P	0.976574

overview

Window 1

Location	4,003,317 – 4,003,418
Length	101
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	92.26
Mean single sequence MFE	-25.66
Consensus MFE	-19.18
Energy contribution	-19.86
Covariance contribution	0.68
Combinations/Pair	1.06
Mean z-score	-1.86
Structure conservation index	0.75
SVM decision value	0.22
SVM RNA-class probability	0.642027
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4003317 101 + 22407834
UCCUGGUUGUCAAAUCGAAUAUUCCGAAUUUUAUUUGAUCAAGUGAUUGAGAUUCAGAGAGUCCCGAGAGACUUUUCUUGAUUGACCGUCAGAAAU-UACCA
..((((..(((((.((((.......(((((((....((((....))))))))))).(((((((......))))))).)))))))))..))))....-..... ( -23.60)
>DroSec_CAF1 136191 100 + 1
UCCUGGUUGUCAAAUCGAAAAUUCCGAAUU-UGUUUGAUCAAGUGAUUGAGAUUCAGAGAGUCCCGAGAGACUUUUUUUGAUUGACCGUCAGAAAU-UACCA
..((((..(((((.(((((((.((.(((((-...(..(((....)))..)))))).))(((((......)))))))))))))))))..))))....-..... ( -24.90)
>DroSim_CAF1 140755 100 + 1
UCCUGGUUGUCAAAUCGAAAAUUCCGAAUU-UGUUUGAUCAAGUGAUUGAGAUUCAGAGAGUCCCGAGAGACUUUUCUUGAUUGACCGUCAGAAAU-UACCA
..((((..(((((.((((.......(((((-...(..(((....)))..)))))).(((((((......))))))).)))))))))..))))....-..... ( -23.70)
>DroEre_CAF1 141568 100 + 1
UUCUGGUUGUCAAAUCGAAAAAUCCAAAUU-UGUUUGAUCAAGUGAUUGAGAUUCAUCGAGUCUCGAGAGACUUUUCUUGAUUGACCGGCAGAAUU-UACCA
(((((.(.(((((.((((..((((((((((-((......)))))..))).))))..))))...(((((((....)))))))))))).).)))))..-..... ( -25.90)
>DroYak_CAF1 146949 101 + 1
UUCUGGUUGUCAAAUCGAAAAAUCUGAAUU-UGUUUGAUCAAGUGAUUAGGAUUCAGAGAGUCUCGAGAGACUUUUCUUGAUUGACCGGCAGAAUUUUAGCA
(((((.(.(((((.((((....((((((((-...((((((....))))))))))))))((((((....))))))...))))))))).).)))))........ ( -30.20)
>consensus
UCCUGGUUGUCAAAUCGAAAAUUCCGAAUU_UGUUUGAUCAAGUGAUUGAGAUUCAGAGAGUCCCGAGAGACUUUUCUUGAUUGACCGUCAGAAAU_UACCA
..((((..(((((.((((.......(((((....((((((....))))))))))).(((((((......))))))).)))))))))..)))).......... (-19.18 = -19.86 +   0.68)

alignment

secondary structure

dotplot

Window 2

Location	4,003,317 – 4,003,418
Length	101
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	92.26
Mean single sequence MFE	-21.56
Consensus MFE	-18.84
Energy contribution	-18.84
Covariance contribution	-0.00
Combinations/Pair	1.14
Mean z-score	-1.78
Structure conservation index	0.87
SVM decision value	1.77
SVM RNA-class probability	0.976574
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 4003317 101 - 22407834
UGGUA-AUUUCUGACGGUCAAUCAAGAAAAGUCUCUCGGGACUCUCUGAAUCUCAAUCACUUGAUCAAAUAAAAUUCGGAAUAUUCGAUUUGACAACCAGGA
.....-..(((((...(((((....(((.(((((....))))).(((((((....(((....)))........)))))))...)))...)))))...))))) ( -20.20)
>DroSec_CAF1 136191 100 - 1
UGGUA-AUUUCUGACGGUCAAUCAAAAAAAGUCUCUCGGGACUCUCUGAAUCUCAAUCACUUGAUCAAACA-AAUUCGGAAUUUUCGAUUUGACAACCAGGA
.....-..(((((...(((((((.((((.(((((....))))).(((((((....(((....)))......-.))))))).)))).)).)))))...))))) ( -20.40)
>DroSim_CAF1 140755 100 - 1
UGGUA-AUUUCUGACGGUCAAUCAAGAAAAGUCUCUCGGGACUCUCUGAAUCUCAAUCACUUGAUCAAACA-AAUUCGGAAUUUUCGAUUUGACAACCAGGA
.....-..(((((...(((((....(((((((((....))))..(((((((....(((....)))......-.))))))).)))))...)))))...))))) ( -22.00)
>DroEre_CAF1 141568 100 - 1
UGGUA-AAUUCUGCCGGUCAAUCAAGAAAAGUCUCUCGAGACUCGAUGAAUCUCAAUCACUUGAUCAAACA-AAUUUGGAUUUUUCGAUUUGACAACCAGAA
.....-..(((((...(((((....(((((((((...((((.((...)).)))).(((....)))......-.....)))))))))...)))))...))))) ( -22.70)
>DroYak_CAF1 146949 101 - 1
UGCUAAAAUUCUGCCGGUCAAUCAAGAAAAGUCUCUCGAGACUCUCUGAAUCCUAAUCACUUGAUCAAACA-AAUUCAGAUUUUUCGAUUUGACAACCAGAA
........(((((...(((((....(((((((((....))))..(((((((....(((....)))......-.))))))).)))))...)))))...))))) ( -22.50)
>consensus
UGGUA_AUUUCUGACGGUCAAUCAAGAAAAGUCUCUCGGGACUCUCUGAAUCUCAAUCACUUGAUCAAACA_AAUUCGGAAUUUUCGAUUUGACAACCAGGA
........(((((...(((((....(((((((((....))))..(((((((....(((....)))........))))))).)))))...)))))...))))) (-18.84 = -18.84 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:03:56 2006