Locus 6597

Sequence ID	2L_DroMel_CAF1
Location	18,521,122 – 18,521,227
Length	105
Max. P	0.767694

overview

Window 3

Location	18,521,122 – 18,521,227
Length	105
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	86.31
Mean single sequence MFE	-37.88
Consensus MFE	-28.35
Energy contribution	-29.43
Covariance contribution	1.08
Combinations/Pair	1.06
Mean z-score	-1.87
Structure conservation index	0.75
SVM decision value	0.52
SVM RNA-class probability	0.767694
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18521122 105 + 22407834
AACUUAUGUGUGCCAAUUGCC---UGCCGUCCGUUGCCUGCAUAUUGGCCAAUCGUUAUGGAUUUGACUGGCCUCAAUGGGCAGC---CACGCACCUGGCAA---------AUGGGUAAU
.((((((...(((((..(((.---.((.((((((((..........(((((.(((.........))).))))).)))))))).))---...)))..))))).---------))))))... ( -37.40)
>DroPse_CAF1 50225 111 + 1
A-CUUCAGUGGGCCAAUUGGCAAUUGCCGCCUGCUGUCUGG--AUUGGCCAAUGG------CAUCGACUGGCCCCAAUGGGCAGCCGCCACGCACCUGGCAAAGGUGUUUAAUGGGUAAU
.-((.(((..(((.....(((....))))))..)))...))--((((.(((.(((------(...(.(((.(((....))))))).)))).((((((.....))))))....))).)))) ( -40.70)
>DroSec_CAF1 41509 105 + 1
AACUUAUGUGUGCCAAUUGCC---UGCCGUCCGUUGCCUGCAUAUUGGCCAAUGGUUAUGGAUUUGACUGGCCUCAAUGGGCAGC---CACGCACCUGGCAA---------AUGGGUAAU
.((((((...(((((..(((.---.((.((((((((..........(((((...((((......))))))))).)))))))).))---...)))..))))).---------))))))... ( -37.10)
>DroSim_CAF1 42420 105 + 1
AACUUAUGUGUGCCAAUUGCC---UGCCGUCCGUUGCCUGCAUAUUGGCCAAUGGUUAUGGAUUUGACUGGCCUCAAUGGGCAGC---CACGCACCUGGCAA---------AUGGGUAAU
.((((((...(((((..(((.---.((.((((((((..........(((((...((((......))))))))).)))))))).))---...)))..))))).---------))))))... ( -37.10)
>DroYak_CAF1 41431 105 + 1
AACUUAUGUGUGCCAAUUGCC---UGCCGUCCGUUGCCUGCAUAUUGGCCAAUGGUUAUGGAUUUGACUGGCCUCAAUGGGCAGC---CACGCACCUGGCAA---------AUGGGUAAU
.((((((...(((((..(((.---.((.((((((((..........(((((...((((......))))))))).)))))))).))---...)))..))))).---------))))))... ( -37.10)
>consensus
AACUUAUGUGUGCCAAUUGCC___UGCCGUCCGUUGCCUGCAUAUUGGCCAAUGGUUAUGGAUUUGACUGGCCUCAAUGGGCAGC___CACGCACCUGGCAA_________AUGGGUAAU
.((((((.........(((((...(((.....((((((((......(((((...((((......)))))))))....))))))))......)))...))))).........))))))... (-28.35 = -29.43 +   1.08)

alignment

secondary structure

dotplot

Window 4

Location	18,521,122 – 18,521,227
Length	105
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	86.31
Mean single sequence MFE	-34.32
Consensus MFE	-26.62
Energy contribution	-27.22
Covariance contribution	0.60
Combinations/Pair	1.00
Mean z-score	-1.51
Structure conservation index	0.78
SVM decision value	0.02
SVM RNA-class probability	0.544766
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18521122 105 - 22407834
AUUACCCAU---------UUGCCAGGUGCGUG---GCUGCCCAUUGAGGCCAGUCAAAUCCAUAACGAUUGGCCAAUAUGCAGGCAACGGACGGCA---GGCAAUUGGCACACAUAAGUU
.........---------.((((((.(((.((---.(((.((.....((((((((...........))))))))........(....))).)))))---.))).)))))).......... ( -36.50)
>DroPse_CAF1 50225 111 - 1
AUUACCCAUUAAACACCUUUGCCAGGUGCGUGGCGGCUGCCCAUUGGGGCCAGUCGAUG------CCAUUGGCCAAU--CCAGACAGCAGGCGGCAAUUGCCAAUUGGCCCACUGAAG-U
.............(((((.....))))).(((((((((((((....))).))))))..(------(((...(((...--..........)))(((....)))...)))))))).....-. ( -37.52)
>DroSec_CAF1 41509 105 - 1
AUUACCCAU---------UUGCCAGGUGCGUG---GCUGCCCAUUGAGGCCAGUCAAAUCCAUAACCAUUGGCCAAUAUGCAGGCAACGGACGGCA---GGCAAUUGGCACACAUAAGUU
.........---------.((((((.(((.((---.(((.((.....(((((((.............)))))))........(....))).)))))---.))).)))))).......... ( -32.52)
>DroSim_CAF1 42420 105 - 1
AUUACCCAU---------UUGCCAGGUGCGUG---GCUGCCCAUUGAGGCCAGUCAAAUCCAUAACCAUUGGCCAAUAUGCAGGCAACGGACGGCA---GGCAAUUGGCACACAUAAGUU
.........---------.((((((.(((.((---.(((.((.....(((((((.............)))))))........(....))).)))))---.))).)))))).......... ( -32.52)
>DroYak_CAF1 41431 105 - 1
AUUACCCAU---------UUGCCAGGUGCGUG---GCUGCCCAUUGAGGCCAGUCAAAUCCAUAACCAUUGGCCAAUAUGCAGGCAACGGACGGCA---GGCAAUUGGCACACAUAAGUU
.........---------.((((((.(((.((---.(((.((.....(((((((.............)))))))........(....))).)))))---.))).)))))).......... ( -32.52)
>consensus
AUUACCCAU_________UUGCCAGGUGCGUG___GCUGCCCAUUGAGGCCAGUCAAAUCCAUAACCAUUGGCCAAUAUGCAGGCAACGGACGGCA___GGCAAUUGGCACACAUAAGUU
...................((((((.(((......((((.((.....(((((((.............)))))))........(....))).)))).....))).)))))).......... (-26.62 = -27.22 +   0.60)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:16 2006