Locus 846

Sequence ID	2L_DroMel_CAF1
Location	2,407,156 – 2,407,261
Length	105
Max. P	0.882278

overview

Window 2

Location	2,407,156 – 2,407,261
Length	105
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	82.73
Mean single sequence MFE	-42.29
Consensus MFE	-34.78
Energy contribution	-34.39
Covariance contribution	-0.38
Combinations/Pair	1.26
Mean z-score	-2.19
Structure conservation index	0.82
SVM decision value	0.92
SVM RNA-class probability	0.882278
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2407156 105 + 22407834
---------------UAGCCUACCGGGUGUUGGACUACAGUCUUCACCCUGGCCGCCUGUGUUCAUUUGGUUGGCUGCACUUUCUAUGGUAUUUUCGCAUCUGGAGAGCUGCAGCCGUGG
---------------....((((.(((((..((((....)))).))))).(((((..((....))..)))))((((((((((((((.(((........)))))))))).))))))))))) ( -40.70)
>DroPse_CAF1 35815 112 + 1
--------AUCGUUGCAGCCCACUGGCUGUUGGACCACUGUGUUCACCCUGGCCGCCUGUGUUCAUCUGGUGGGCUGCACUUUCUACGGCAUCUUCGCCUCUGGAGAGCUGCAGCCCUGG
--------......((((((....))))))...((((..(((..(((...((...)).)))..))).))))(((((((((((((((.(((......)))..))))))).))))))))... ( -45.70)
>DroEre_CAF1 26311 120 + 1
UAUAUUCUAAUGUUUCAGCCCACCGGUUGCUGGACCACUGUCUUCACCCUGGCCGCAUGUGUUCACUUGGUUGGCUGCACUUUCUACGGCGUUUUUGCCUCCGGAGAGCUGCAGCCGUGG
.............((((((((...))..))))))((((............(((((..((....))..)))))(((((((((((((..((((....))))...)))))).))))))))))) ( -39.90)
>DroYak_CAF1 27284 120 + 1
UAUAUUCAAUUGUUUCAGCCCACCGGUUGCUGGACCACUGUCUUCACCCUGGCCGCCUGUGUUCAUUUGGUUGGCUGCACUUUCUACGGCAUUUUUGCCUCCGGAGAGCUGCAGCCGUGG
.............((((((((...))..))))))((((............(((((..((....))..)))))(((((((((((((..((((....))))...)))))).))))))))))) ( -40.60)
>DroAna_CAF1 31266 114 + 1
--AAUUAAA----UUUAGCCCACCGGCUGCUGGACCACCGUCUUCACCUUGGCCGCCUGUGUUCAUUUGAUUGGCUGCACUUUCUACGGAAUCUUUGCUUCCGGAGAGUUGCAGCCUUGG
--(((((((----(...(..(((.(((.(((((((....)))).......))).))).)))..)))))))))((((((((((((..(((((.......)))))))))).))))))).... ( -38.81)
>DroPer_CAF1 37038 112 + 1
--------AUCGUUGCAGCCCACUGGCUGCUGGACCACUGUGUUCACCCUGGCCGCCUGUGUUCAUCUGGUGGGCUGCACUUUCUACGGCAUCUUCGCCUCUGGAGAGCUGCAGCCCUGG
--------......((((((....))))))...((((..(((..(((...((...)).)))..))).))))(((((((((((((((.(((......)))..))))))).))))))))... ( -48.00)
>consensus
________AU_GUUUCAGCCCACCGGCUGCUGGACCACUGUCUUCACCCUGGCCGCCUGUGUUCAUUUGGUUGGCUGCACUUUCUACGGCAUCUUCGCCUCCGGAGAGCUGCAGCCGUGG
.................(..(((.(((.((..(...............)..)).))).)))..).......((((((((((((((..(((......)))...)))))).))))))))... (-34.78 = -34.39 +  -0.38)

alignment

secondary structure

dotplot

Window 3

Location	2,407,156 – 2,407,261
Length	105
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	82.73
Mean single sequence MFE	-39.20
Consensus MFE	-26.60
Energy contribution	-28.10
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-1.86
Structure conservation index	0.68
SVM decision value	0.17
SVM RNA-class probability	0.619015
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2407156 105 - 22407834
CCACGGCUGCAGCUCUCCAGAUGCGAAAAUACCAUAGAAAGUGCAGCCAACCAAAUGAACACAGGCGGCCAGGGUGAAGACUGUAGUCCAACACCCGGUAGGCUA---------------
....(((((((.((.((...(((.(......)))).)).)))))))))...............(((.(((.(((((..(((....)))...))))))))..))).--------------- ( -33.80)
>DroPse_CAF1 35815 112 - 1
CCAGGGCUGCAGCUCUCCAGAGGCGAAGAUGCCGUAGAAAGUGCAGCCCACCAGAUGAACACAGGCGGCCAGGGUGAACACAGUGGUCCAACAGCCAGUGGGCUGCAACGAU--------
...((((((((.((.((....(((......)))...)).))))))))))...............((((((...(....).((.((((......)))).))))))))......-------- ( -42.50)
>DroEre_CAF1 26311 120 - 1
CCACGGCUGCAGCUCUCCGGAGGCAAAAACGCCGUAGAAAGUGCAGCCAACCAAGUGAACACAUGCGGCCAGGGUGAAGACAGUGGUCCAGCAACCGGUGGGCUGAAACAUUAGAAUAUA
(((((((((((.((.((....(((......)))...)).)))))))))...............((((((((..((....))..))).)).)))....)))).((((....))))...... ( -37.20)
>DroYak_CAF1 27284 120 - 1
CCACGGCUGCAGCUCUCCGGAGGCAAAAAUGCCGUAGAAAGUGCAGCCAACCAAAUGAACACAGGCGGCCAGGGUGAAGACAGUGGUCCAGCAACCGGUGGGCUGAAACAAUUGAAUAUA
....(((((((.((.((....((((....))))...)).)))))))))...(((.((....(((.(.(((.((.((..(((....)))...)).))))).).)))...)).)))...... ( -38.80)
>DroAna_CAF1 31266 114 - 1
CCAAGGCUGCAACUCUCCGGAAGCAAAGAUUCCGUAGAAAGUGCAGCCAAUCAAAUGAACACAGGCGGCCAAGGUGAAGACGGUGGUCCAGCAGCCGGUGGGCUAAA----UUUAAUU--
....(((((((..(((.(((((.......))))).)))...)))))))........(..(((.((((((((..((....))..))))).....))).)))..)....----.......-- ( -39.20)
>DroPer_CAF1 37038 112 - 1
CCAGGGCUGCAGCUCUCCAGAGGCGAAGAUGCCGUAGAAAGUGCAGCCCACCAGAUGAACACAGGCGGCCAGGGUGAACACAGUGGUCCAGCAGCCAGUGGGCUGCAACGAU--------
...((((((((.((.((....(((......)))...)).))))))))))...............(.(((((..((....))..)))))).((((((....))))))......-------- ( -43.70)
>consensus
CCACGGCUGCAGCUCUCCAGAGGCAAAAAUGCCGUAGAAAGUGCAGCCAACCAAAUGAACACAGGCGGCCAGGGUGAAGACAGUGGUCCAGCAGCCGGUGGGCUGAAAC_AU________
....(((((((.((.((....(((......)))...)).))))))))).................(((((.((.((..(((....)))...)).))....)))))............... (-26.60 = -28.10 +   1.50)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:59 2006