Locus 7300

Sequence ID	2L_DroMel_CAF1
Location	20,457,255 – 20,457,414
Length	159
Max. P	0.998188

overview

Window 9

Location	20,457,255 – 20,457,374
Length	119
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	96.74
Mean single sequence MFE	-37.68
Consensus MFE	-34.22
Energy contribution	-34.18
Covariance contribution	-0.04
Combinations/Pair	1.04
Mean z-score	-1.95
Structure conservation index	0.91
SVM decision value	2.37
SVM RNA-class probability	0.993049
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20457255 119 + 22407834
AUAUUCCAUCUCGGGCUGGGAGU-UUCUUUAAUAUUUUUGCAAAUGAUGCCGAGAAAUCUCGGAGCGAACUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCC
............((.(((((((.-.........................(((((....))))).(((....)))..))).)))).))........(((((((((.....))))))))).. ( -36.10)
>DroSec_CAF1 10149 119 + 1
AUAUUCCAUCCCGGGCUGGGGGU-UUCUUUAAUAUUUUUGCAAAUGAUGCCGAGAAAUCUCGGAGCGAACUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCC
.........(((((.(.((((..-.........................(((((....))))).(((....))).))))))))))..........(((((((((.....))))))))).. ( -39.80)
>DroSim_CAF1 11816 119 + 1
AUAUUCCAUCUCGGGCUGGGGGU-UUCUUUAAUAUUUUUGCAAAUGAUGCCGAGAAAUCUCGGAGCGAACUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCC
..........((.(((.((((..-.........................(((((....))))).(((....))).))))))).))..........(((((((((.....))))))))).. ( -37.00)
>DroEre_CAF1 12675 119 + 1
AUAUUCCAUCGCGGGCUGCGAGUUUUCUUUAAUAUU-UUGCAAAUGAUGCCGAGAAAUCUCGGAGCGUUCUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCC
.....((...(((((.((((((..............-.....((((...(((((....)))))..)))))))))).)))))..))..........(((((((((.....))))))))).. ( -40.00)
>DroYak_CAF1 10438 120 + 1
AUAUUCCAUCUCGGGCUGGGAGUUUUCUUUAAUAUUUUUGCAAAUGAUGCCGAGAAAUCUCGGAGCGUUCUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCC
............((.(((((((...........................(((((....))))).(((....)))..))).)))).))........(((((((((.....))))))))).. ( -35.50)
>consensus
AUAUUCCAUCUCGGGCUGGGAGU_UUCUUUAAUAUUUUUGCAAAUGAUGCCGAGAAAUCUCGGAGCGAACUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCC
............((.(((((((...........................(((((....))))).(((....)))..))).)))).))........(((((((((.....))))))))).. (-34.22 = -34.18 +  -0.04)

alignment

secondary structure

dotplot

Window 0

Location	20,457,294 – 20,457,414
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	99.00
Mean single sequence MFE	-39.96
Consensus MFE	-39.96
Energy contribution	-39.96
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-2.14
Structure conservation index	1.00
SVM decision value	3.03
SVM RNA-class probability	0.998188
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20457294 120 + 22407834
CAAAUGAUGCCGAGAAAUCUCGGAGCGAACUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCCACUUGAAAGCCGACAUUUGCAUAAUGGCGGGCGACACAUU
..((((...(((((....))))).(((....)))...(((((..((((((...(((((((((((.....))))))((((..((....))..))))..))))))))))).)))))..)))) ( -40.20)
>DroSec_CAF1 10188 120 + 1
CAAAUGAUGCCGAGAAAUCUCGGAGCGAACUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCCACUUGAAAGCCGACAUUUGCAUAAUGGCGGGCGACACAUU
..((((...(((((....))))).(((....)))...(((((..((((((...(((((((((((.....))))))((((..((....))..))))..))))))))))).)))))..)))) ( -40.20)
>DroSim_CAF1 11855 120 + 1
CAAAUGAUGCCGAGAAAUCUCGGAGCGAACUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCCACUUGAAAGCCGACAUUUGCAUAAUGGCGGGCGACACAUU
..((((...(((((....))))).(((....)))...(((((..((((((...(((((((((((.....))))))((((..((....))..))))..))))))))))).)))))..)))) ( -40.20)
>DroEre_CAF1 12714 120 + 1
CAAAUGAUGCCGAGAAAUCUCGGAGCGUUCUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCCACUUGAAAGCCGACAUUUGCAUAAUGGCGGGCGACACAUU
..((((...(((((....))))).(((....)))...(((((..((((((...(((((((((((.....))))))((((..((....))..))))..))))))))))).)))))..)))) ( -39.60)
>DroYak_CAF1 10478 120 + 1
CAAAUGAUGCCGAGAAAUCUCGGAGCGUUCUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCCACUUGAAAGCCGACAUUUGCAUAAUGGCGGGCGACACAUU
..((((...(((((....))))).(((....)))...(((((..((((((...(((((((((((.....))))))((((..((....))..))))..))))))))))).)))))..)))) ( -39.60)
>consensus
CAAAUGAUGCCGAGAAAUCUCGGAGCGAACUCGCACCUCGCCGGGUCAUUUAAAUGCAGAUUGCAAUGAGCAGUCUGUCCACUUGAAAGCCGACAUUUGCAUAAUGGCGGGCGACACAUU
..((((...(((((....))))).(((....)))...(((((..((((((...(((((((((((.....))))))((((..((....))..))))..))))))))))).)))))..)))) (-39.96 = -39.96 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	20,457,294 – 20,457,414
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	99.00
Mean single sequence MFE	-39.64
Consensus MFE	-39.64
Energy contribution	-39.64
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.70
Structure conservation index	1.00
SVM decision value	1.86
SVM RNA-class probability	0.980538
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20457294 120 - 22407834
AAUGUGUCGCCCGCCAUUAUGCAAAUGUCGGCUUUCAAGUGGACAGACUGCUCAUUGCAAUCUGCAUUUAAAUGACCCGGCGAGGUGCGAGUUCGCUCCGAGAUUUCUCGGCAUCAUUUG
......(((((.(.(((((((((..((((.(((....))).))))((.(((.....))).)))))))...))))..).)))))((((((((....)))((((....)))))))))..... ( -40.00)
>DroSec_CAF1 10188 120 - 1
AAUGUGUCGCCCGCCAUUAUGCAAAUGUCGGCUUUCAAGUGGACAGACUGCUCAUUGCAAUCUGCAUUUAAAUGACCCGGCGAGGUGCGAGUUCGCUCCGAGAUUUCUCGGCAUCAUUUG
......(((((.(.(((((((((..((((.(((....))).))))((.(((.....))).)))))))...))))..).)))))((((((((....)))((((....)))))))))..... ( -40.00)
>DroSim_CAF1 11855 120 - 1
AAUGUGUCGCCCGCCAUUAUGCAAAUGUCGGCUUUCAAGUGGACAGACUGCUCAUUGCAAUCUGCAUUUAAAUGACCCGGCGAGGUGCGAGUUCGCUCCGAGAUUUCUCGGCAUCAUUUG
......(((((.(.(((((((((..((((.(((....))).))))((.(((.....))).)))))))...))))..).)))))((((((((....)))((((....)))))))))..... ( -40.00)
>DroEre_CAF1 12714 120 - 1
AAUGUGUCGCCCGCCAUUAUGCAAAUGUCGGCUUUCAAGUGGACAGACUGCUCAUUGCAAUCUGCAUUUAAAUGACCCGGCGAGGUGCGAGAACGCUCCGAGAUUUCUCGGCAUCAUUUG
......(((((.(.(((((((((..((((.(((....))).))))((.(((.....))).)))))))...))))..).)))))((((((((....)))((((....)))))))))..... ( -39.10)
>DroYak_CAF1 10478 120 - 1
AAUGUGUCGCCCGCCAUUAUGCAAAUGUCGGCUUUCAAGUGGACAGACUGCUCAUUGCAAUCUGCAUUUAAAUGACCCGGCGAGGUGCGAGAACGCUCCGAGAUUUCUCGGCAUCAUUUG
......(((((.(.(((((((((..((((.(((....))).))))((.(((.....))).)))))))...))))..).)))))((((((((....)))((((....)))))))))..... ( -39.10)
>consensus
AAUGUGUCGCCCGCCAUUAUGCAAAUGUCGGCUUUCAAGUGGACAGACUGCUCAUUGCAAUCUGCAUUUAAAUGACCCGGCGAGGUGCGAGUUCGCUCCGAGAUUUCUCGGCAUCAUUUG
......(((((.(.(((((((((..((((.(((....))).))))((.(((.....))).)))))))...))))..).)))))((((((((....)))((((....)))))))))..... (-39.64 = -39.64 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:49 2006