Locus 7262

Sequence ID	X_DroMel_CAF1
Location	18,106,949 – 18,107,189
Length	240
Max. P	0.938075

overview

Window 5

Location	18,106,949 – 18,107,069
Length	120
Sequences	4
Columns	120
Reading direction	forward
Mean pairwise identity	98.47
Mean single sequence MFE	-55.42
Consensus MFE	-52.06
Energy contribution	-51.88
Covariance contribution	-0.19
Combinations/Pair	1.03
Mean z-score	-3.16
Structure conservation index	0.94
SVM decision value	1.29
SVM RNA-class probability	0.938075
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18106949 120 + 22224390
CCGGCUCCAUCUUUGUCUGCGUCUGUGCGGUGGCCAUGGCCAAUGUCUACACAACAAGGUGACGGCUCAUAAUGACGGGCCAUGGCCAAGAACGUGAGCACGGAUGGGCUGGGCUGCCAU
(((((.((((((.(((..((((((......(((((((((((...(((..........(....)..........))).))))))))))))).))))..))).)))))))))))........ ( -55.25)
>DroSec_CAF1 15387 120 + 1
CCGGCUCCAUCUUUGUCUGCGUCUGUGCGGUGGCCAUGGCCAAUGUCUACACAAUAAGGUGACGGCUCAUAAUGACGGGCCAUGGCCAAGAACGUGAGCACGGAUGGGCCGGGCUGCCAU
(((((.((((((.(((..((((((......(((((((((((...(((..........(....)..........))).))))))))))))).))))..))).)))))))))))........ ( -57.45)
>DroEre_CAF1 13079 120 + 1
ACGGCUCCAUCUUUGUCUGCGUCUGUGCGGUGGCCAUGGCCAAUGUCUACACAACAAGGUGACGGCUCAUAAUGACGGGCCAUGGCCAAGAACGUGAGCACGGAUGGGCCGGGCUGCCAU
.((((.((((((.(((..((((((......(((((((((((...(((..........(....)..........))).))))))))))))).))))..))).))))))))))......... ( -54.65)
>DroYak_CAF1 15059 120 + 1
GCGGCUCCAUCUUUGUCUGCGUCUGUGCGGUGGCCAUGGCCAAUGUCUACACAACAAGGUGACGGCUCAUAAUGACGGGCCAUGGCCAAGAACGUGAGCACGGAUGGGCCGGGCUGCCAU
.((((.((((((.(((..((((((......(((((((((((...(((..........(....)..........))).))))))))))))).))))..))).))))))))))......... ( -54.35)
>consensus
CCGGCUCCAUCUUUGUCUGCGUCUGUGCGGUGGCCAUGGCCAAUGUCUACACAACAAGGUGACGGCUCAUAAUGACGGGCCAUGGCCAAGAACGUGAGCACGGAUGGGCCGGGCUGCCAU
.((((.((((((.(((..((((((......(((((((((((...(((..(((......)))..)))((.....))..))))))))))))).))))..))).))))))))))......... (-52.06 = -51.88 +  -0.19)

alignment

secondary structure

dotplot

Window 6

Location	18,107,069 – 18,107,189
Length	120
Sequences	4
Columns	120
Reading direction	reverse
Mean pairwise identity	92.19
Mean single sequence MFE	-41.67
Consensus MFE	-38.62
Energy contribution	-38.88
Covariance contribution	0.25
Combinations/Pair	1.00
Mean z-score	-1.27
Structure conservation index	0.93
SVM decision value	-0.06
SVM RNA-class probability	0.500000
Prediction	OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18107069 120 - 22224390
UAAAAGCAGUCCCCCGUUUUCUCGCCGUGCUGCGGCCAAGGAAGCGGGAACCGGCGACUCACACUCAUCCAUGGGAGGUGCAAACGCCUCAACGCAGCGCGAUUUGAUCCCAGCCGAUCC
............((((((((((.((((.....))))..))))))))))...((((((.......)).....(((((....(((((((((......)).))).)))).))))))))).... ( -42.80)
>DroSec_CAF1 15507 119 - 1
UAAAAGCAG-CCUCCGUUUCCUCGCCGUGCUGCGGCCAAGGAAGCGGGAACCGGCGACUCACACUCAUCCAUGGGAGGUGCAAACGCCUCAACGCAGCGCGAUUUGAUCCCAGCCGAUCC
.........-..((((((((((.((((.....))))..))))))))))...((((((.......)).....(((((....(((((((((......)).))).)))).))))))))).... ( -42.90)
>DroEre_CAF1 13199 119 - 1
UACAAGCAA-UCACCCUUUUCUCGCCGUGCUGCGGCCAGGGAAGCGCGAACCGGCGACUCAUUCUCAUCCAUGGGAGGUGCAAACGCCUCAACGCAGCGCGAUUUGAUCCCAGCCGAUCC
.........-...............(((((((((.(((.((((((((......))).))........))).)))((((((....))))))..)))))))))....((((......)))). ( -38.90)
>DroYak_CAF1 15179 116 - 1
-AACCGCAA-CCA--CUUUUCUCGCCGUGCUGCGGCCAAGGAAGCGGGAAACGGCGACUCAUACUCAUCCAUGGGAGGUGCAAACGCCUCAACGCAGCGCGAUUUGAUCCCAGCCGAUCC
-........-...--..........(((((((((.(((.(((.((.(....).))((.......)).))).)))((((((....))))))..)))))))))....((((......)))). ( -42.10)
>consensus
UAAAAGCAA_CCACCCUUUUCUCGCCGUGCUGCGGCCAAGGAAGCGGGAACCGGCGACUCACACUCAUCCAUGGGAGGUGCAAACGCCUCAACGCAGCGCGAUUUGAUCCCAGCCGAUCC
.........................(((((((((.(((.(((.((.(....).))((.......)).))).)))((((((....))))))..)))))))))....((((......)))). (-38.62 = -38.88 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:33 2006