Locus 4859

Sequence ID	3L_DroMel_CAF1
Location	13,598,016 – 13,598,168
Length	152
Max. P	0.999781

overview

Window 5

Location	13,598,016 – 13,598,128
Length	112
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	95.06
Mean single sequence MFE	-28.15
Consensus MFE	-26.59
Energy contribution	-26.95
Covariance contribution	0.36
Combinations/Pair	1.04
Mean z-score	-2.50
Structure conservation index	0.94
SVM decision value	4.07
SVM RNA-class probability	0.999781
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13598016 112 - 23771897
UGUAGUUUUCAUUUAAGUGCAAAGUUUUUCUGCGCUGCAUAAACUUUGCGUUAUUUCACACGCAGGUAUUAUAUUGCCAAAGCAGCCGAGCACAAAAGCAAAAUGCAAUAAA--------
.................((((..((((((.((((((((........(((((........)))))((((......))))...)))))...))).))))))....)))).....-------- ( -28.60)
>DroSec_CAF1 4855 112 - 1
UGUAGUUUUCAUUUAAGUGCAAAGUUUUUCUGCGCUGCAUAAACUUUGCGUUAUUUCACACGCAGGUAUUAUAUUGCCAAAGCAGCCGAGCACAAAAGCAAAAUGCAAUAAA--------
.................((((..((((((.((((((((........(((((........)))))((((......))))...)))))...))).))))))....)))).....-------- ( -28.60)
>DroSim_CAF1 14233 112 - 1
UGUAGUUUUCAUUUAAGUGCAAAGUUUUUCUGCGCUGCAUAAACUUUGCGUUAUUUCACACGCAGGUAUUAUAUUGCCAAAGCAGCCGAGCACAAAAGCAAAAUGCAAUAAA--------
.................((((..((((((.((((((((........(((((........)))))((((......))))...)))))...))).))))))....)))).....-------- ( -28.60)
>DroEre_CAF1 6063 112 - 1
UGUAGUUUUCAUUUAAGUGCAAAGUUUUUCUGCGCUGCAUAAACUUUGCGUUAUUUCACACGCAGGUAUUAUAUUACCAAAGCAGCCGAGCACAAAAGCAAAAUGCAAUAAA--------
.................((((..((((((.((((((((........(((((........)))))((((......))))...)))))...))).))))))....)))).....-------- ( -28.60)
>DroYak_CAF1 11012 112 - 1
UGUAGUUUUCAUUUAAGUGCAAAGUUUUUCUGCGCUGCAUAAACUUUGCGUUAUUUCACACGCAGGUAUUAUAUUGCCAAAGCAGCCGAGCACAAAAGCAAAAUGCAAUAAA--------
.................((((..((((((.((((((((........(((((........)))))((((......))))...)))))...))).))))))....)))).....-------- ( -28.60)
>DroAna_CAF1 40613 114 - 1
UGUAGUUUUCAUUUAAGUGCAAAGUUUUUCCGCGCUGCAUAAACUUUGCGUUAUUUCACACGCAGGUAUUAUAUUGCCAAAGCAG-----CACAAAAGCA-AAUGCAAUAAGGCCAGAAG
.......(((.((((..((((..((((((..(.(((((........(((((........)))))((((......))))...))))-----).))))))).-..)))).))))....))). ( -25.90)
>consensus
UGUAGUUUUCAUUUAAGUGCAAAGUUUUUCUGCGCUGCAUAAACUUUGCGUUAUUUCACACGCAGGUAUUAUAUUGCCAAAGCAGCCGAGCACAAAAGCAAAAUGCAAUAAA________
.................((((..((((((.((((((((........(((((........)))))((((......))))...)))))...))).))))))....))))............. (-26.59 = -26.95 +   0.36)

alignment

secondary structure

dotplot

Window 6

Location	13,598,048 – 13,598,168
Length	120
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	97.33
Mean single sequence MFE	-23.85
Consensus MFE	-22.12
Energy contribution	-21.90
Covariance contribution	-0.22
Combinations/Pair	1.12
Mean z-score	-1.53
Structure conservation index	0.93
SVM decision value	1.65
SVM RNA-class probability	0.969800
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13598048 120 + 23771897
UUGGCAAUAUAAUACCUGCGUGUGAAAUAACGCAAAGUUUAUGCAGCGCAGAAAAACUUUGCACUUAAAUGAAAACUACAAAACAUUUAACUUUCGUCCAAAAAGGAGGCGACAGAAUUU
...............((((((..((((....(((((((((.(((...)))...)))))))))..(((((((............))))))).)))).(((.....))).))).)))..... ( -23.60)
>DroSec_CAF1 4887 120 + 1
UUGGCAAUAUAAUACCUGCGUGUGAAAUAACGCAAAGUUUAUGCAGCGCAGAAAAACUUUGCACUUAAAUGAAAACUACAAAACAUUUAACUUUCGUCCAAAAUGGAGGCGACAGAAUUU
...............((((((..((((....(((((((((.(((...)))...)))))))))..(((((((............))))))).)))).(((.....))).))).)))..... ( -23.90)
>DroSim_CAF1 14265 120 + 1
UUGGCAAUAUAAUACCUGCGUGUGAAAUAACGCAAAGUUUAUGCAGCGCAGAAAAACUUUGCACUUAAAUGAAAACUACAAAACAUUUAACUUUCGUCCAAAAUGGAGGCGACAGAAUUU
...............((((((..((((....(((((((((.(((...)))...)))))))))..(((((((............))))))).)))).(((.....))).))).)))..... ( -23.90)
>DroEre_CAF1 6095 120 + 1
UUGGUAAUAUAAUACCUGCGUGUGAAAUAACGCAAAGUUUAUGCAGCGCAGAAAAACUUUGCACUUAAAUGAAAACUACAAAACAUUUAACUUUCGUCCAAAAAGGAGGCGACAGAAUUU
...............((((((..((((....(((((((((.(((...)))...)))))))))..(((((((............))))))).)))).(((.....))).))).)))..... ( -23.60)
>DroYak_CAF1 11044 120 + 1
UUGGCAAUAUAAUACCUGCGUGUGAAAUAACGCAAAGUUUAUGCAGCGCAGAAAAACUUUGCACUUAAAUGAAAACUACAAAACAUUUAACUUUCGUCCAAAAAGGAGGCGACAGAAUUU
...............((((((..((((....(((((((((.(((...)))...)))))))))..(((((((............))))))).)))).(((.....))).))).)))..... ( -23.60)
>DroAna_CAF1 40647 118 + 1
UUGGCAAUAUAAUACCUGCGUGUGAAAUAACGCAAAGUUUAUGCAGCGCGGAAAAACUUUGCACUUAAAUGAAAACUACAAAACAUUUAACUUUUGG-CAAAAAGGAGACG-CGGAAUUU
...............((((((.(........(((((((((.(((...)))...)))))))))..(((((((............)))))))(((((..-..))))).).)))-)))..... ( -24.50)
>consensus
UUGGCAAUAUAAUACCUGCGUGUGAAAUAACGCAAAGUUUAUGCAGCGCAGAAAAACUUUGCACUUAAAUGAAAACUACAAAACAUUUAACUUUCGUCCAAAAAGGAGGCGACAGAAUUU
...............((((((..((((....(((((((((.(((...)))...)))))))))..(((((((............))))))).)))).(((.....))).))).)))..... (-22.12 = -21.90 +  -0.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:22 2006