Locus 4655

Sequence ID	2L_DroMel_CAF1
Location	13,341,296 – 13,341,389
Length	93
Max. P	0.926348

overview

Window 8

Location	13,341,296 – 13,341,389
Length	93
Sequences	5
Columns	94
Reading direction	forward
Mean pairwise identity	77.37
Mean single sequence MFE	-26.60
Consensus MFE	-12.92
Energy contribution	-12.72
Covariance contribution	-0.20
Combinations/Pair	1.21
Mean z-score	-1.93
Structure conservation index	0.49
SVM decision value	0.34
SVM RNA-class probability	0.695854
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13341296 93 + 22407834
GUUAGCAUUCGAGCAUCUUUUGGACAGUUCACUCCGAGUUGAGCAGA-AAAAGGACCUCUUUGUUUGUAACUGUGCUCAAAAUCGGAGUCGAGU
......((((((((.((.....))..))))(((((((.(((((((.(-....((((......)))).....).)))))))..))))))).)))) ( -25.90)
>DroSec_CAF1 53660 93 + 1
GUUAGCACUUGAGCACCUUAAGUGCAGUUCACUCAGUGUUGAGCAGA-AAAAGGAUCUCUUCGUUUGCAACUACACUCAAAAACAGAGUUGAGU
....(((((((((...)))))))))..((((((((((((...(((((-..(((.....)))..)))))....)))))........))).)))). ( -25.20)
>DroSim_CAF1 53849 93 + 1
GUUAGCACUUGAGCACCUUUUGUGCAGUUCACUCAGUGUUGAGCAGA-AAAAGGACCUCUUCCUUUGCAACUAAACUCAAAAACAGAGUUGAGU
.(((((((((((((((.....))))...)))...))))))))(((..-..(((((.....)))))))).(((.(((((.......))))).))) ( -23.50)
>DroEre_CAF1 54810 90 + 1
GUUUGCAUUUGAGCACCUUUGCGGCAACU----CAGAGUUGAGUUGAAAAAAGGAGCUCUCAGCUUGCAACAGGACUCAAAGACCGAAUCGAGA
..(((((...((((.(((((....(((((----(......))))))...))))).))))......))))).....(((............))). ( -26.00)
>DroYak_CAF1 53970 94 + 1
GUUUGCAUUUGAGCUCCUUUCGUGCAGCUCACUCUGAGUUGAGCUGUGAAAAGGAACUCUUAUUUUGCAACUGAACUCAGAAAGCGAGGCGAGU
.(((((...((((((.(......).)))))).((((((((.((.((..((((((....))).)))..)).)).))))))))..)))))...... ( -32.40)
>consensus
GUUAGCAUUUGAGCACCUUUUGUGCAGUUCACUCAGAGUUGAGCAGA_AAAAGGACCUCUUAGUUUGCAACUGAACUCAAAAACAGAGUCGAGU
(((.(((...(((..(((((....(.(((((........))))).)...)))))..)))......))))))...((((............)))) (-12.92 = -12.72 +  -0.20)

alignment

secondary structure

dotplot

Window 9

Location	13,341,296 – 13,341,389
Length	93
Sequences	5
Columns	94
Reading direction	reverse
Mean pairwise identity	77.37
Mean single sequence MFE	-25.80
Consensus MFE	-10.34
Energy contribution	-11.46
Covariance contribution	1.12
Combinations/Pair	1.39
Mean z-score	-2.26
Structure conservation index	0.40
SVM decision value	1.18
SVM RNA-class probability	0.926348
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13341296 93 - 22407834
ACUCGACUCCGAUUUUGAGCACAGUUACAAACAAAGAGGUCCUUUU-UCUGCUCAACUCGGAGUGAACUGUCCAAAAGAUGCUCGAAUGCUAAC
..((.(((((((..((((((...((.....))..(((((.....))-))))))))).)))))))))..............((......)).... ( -21.80)
>DroSec_CAF1 53660 93 - 1
ACUCAACUCUGUUUUUGAGUGUAGUUGCAAACGAAGAGAUCCUUUU-UCUGCUCAACACUGAGUGAACUGCACUUAAGGUGCUCAAGUGCUAAC
..............((((((((((((........(((((.....))-)))(((((....))))).))))))))))))((..(....)..))... ( -25.20)
>DroSim_CAF1 53849 93 - 1
ACUCAACUCUGUUUUUGAGUUUAGUUGCAAAGGAAGAGGUCCUUUU-UCUGCUCAACACUGAGUGAACUGCACAAAAGGUGCUCAAGUGCUAAC
(((.(((((.......))))).)))((((.((((((((...)))))-)))(((((....)))))....)))).....((..(....)..))... ( -22.10)
>DroEre_CAF1 54810 90 - 1
UCUCGAUUCGGUCUUUGAGUCCUGUUGCAAGCUGAGAGCUCCUUUUUUCAACUCAACUCUG----AGUUGCCGCAAAGGUGCUCAAAUGCAAAC
....((((((.....))))))...(((((......((((.(((((...(((((((....))----)))))....))))).))))...))))).. ( -26.80)
>DroYak_CAF1 53970 94 - 1
ACUCGCCUCGCUUUCUGAGUUCAGUUGCAAAAUAAGAGUUCCUUUUCACAGCUCAACUCAGAGUGAGCUGCACGAAAGGAGCUCAAAUGCAAAC
....((...((...(((....)))..)).......(((((((((((..(((((((........)))))))...)))))))))))....)).... ( -33.10)
>consensus
ACUCGACUCGGUUUUUGAGUUCAGUUGCAAACGAAGAGGUCCUUUU_UCUGCUCAACUCUGAGUGAACUGCACAAAAGGUGCUCAAAUGCUAAC
..........((.(((((((((...((((...((((.....)))).....((((......))))....))))......))))))))).)).... (-10.34 = -11.46 +   1.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:23:48 2006