Locus 2539

Sequence ID	2L_DroMel_CAF1
Location	7,016,424 – 7,016,534
Length	110
Max. P	0.976255

overview

Window 9

Location	7,016,424 – 7,016,534
Length	110
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	73.62
Mean single sequence MFE	-36.65
Consensus MFE	-18.20
Energy contribution	-18.57
Covariance contribution	0.37
Combinations/Pair	1.30
Mean z-score	-2.30
Structure conservation index	0.50
SVM decision value	1.77
SVM RNA-class probability	0.976255
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7016424 110 + 22407834
---AGCCACACUUACCAAUGAAACUGCUGUUCGCCUGCCUGGCACCCUCUUGGACCCCGGAGUGAACCUCCUUGGCCAACUGCUCCUGCCAGUGCCCGCAGGCAUAGUAGCUU
---....................(((((((..((((((..(((((....((((.((..((((.....))))..))))))..((....))..))))).)))))))))))))... ( -38.90)
>DroVir_CAF1 87887 112 + 1
-UAUUUUGGACUCACCCAUCAAGGUGCUGUUUGCCUGCGUUGCGCCCUCUUGCACUCCGGCAGCCACCUCGGCGGCCGAUAGCGCCUGCCAUUUGCCACAGGCAUAGUAGCUG
-.....(((......)))...((((((((((.(((((((..(.((......)).)..).)))(((.....)))))).))))))))))((.(((((((...)))).))).)).. ( -37.10)
>DroGri_CAF1 108439 113 + 1
CCACUUUUUACAUACCAAUAAAGCUGCUGUUUGCCUGCCGGGUGCCAUCGAGCACACCGGCUGCAACUUGUGCGGCCAGCUGCUGUUGCCACUUGCCGCAGGCAUAGUAGCUG
.....................((((((((..((((((((((((((......)))).)))))..........(((((.((..((....))..)).)))))))))))))))))). ( -47.90)
>DroSim_CAF1 2743 110 + 1
---AACCACACUUACCAAUGAAACUGCUGUUCGCCUGCCUGGCGCCCUCUUGAACCCCGGAGUGAACCUCCUUGGCCAACUGCUCCUGCCAGAGGCCGCAGGCAUAGUAGCUU
---....................(((((((..((((((..((..(.((((.(....).)))).)..)).....((((..((((....).))).)))))))))))))))))... ( -33.40)
>DroYak_CAF1 2754 110 + 1
---UUACCAACUUACCAAUGAAACUGCUGUUCGCCUGCCUGGCACCCUCUUGGACCCCGGAGUGCACCUCCUUGGCCAACUGCUCCUGCCAGCGCCCGCAGGCAUAGUAGCUU
---....................(((((((..((((((((((((..(..((((.((..((((.....))))..))))))..)....)))))).....)))))))))))))... ( -37.40)
>DroAna_CAF1 3841 113 + 1
CUAUUUUUUACUUACUAAUAAAGCUGCUAUUAGCUUGACGGGAACCCUCCUGGACUCCAGCAUCCACUUCCUUUGCCAAAUCCUCUUGCCACUGACCACAAGCAUAGUAGCUG
.....................(((((((((..(((((.(((((....))))).......(((...........)))......................)))))))))))))). ( -25.20)
>consensus
___UUUCACACUUACCAAUGAAACUGCUGUUCGCCUGCCUGGCACCCUCUUGGACCCCGGAGUCAACCUCCUUGGCCAACUGCUCCUGCCAGUGGCCGCAGGCAUAGUAGCUG
.......................(((((((..((((((((((((..............((......))......((.....))...)))))).....)))))))))))))... (-18.20 = -18.57 +   0.37)

alignment

secondary structure

dotplot

Window 0

Location	7,016,424 – 7,016,534
Length	110
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	73.62
Mean single sequence MFE	-42.55
Consensus MFE	-21.32
Energy contribution	-22.60
Covariance contribution	1.28
Combinations/Pair	1.30
Mean z-score	-1.92
Structure conservation index	0.50
SVM decision value	0.86
SVM RNA-class probability	0.868565
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 7016424 110 - 22407834
AAGCUACUAUGCCUGCGGGCACUGGCAGGAGCAGUUGGCCAAGGAGGUUCACUCCGGGGUCCAAGAGGGUGCCAGGCAGGCGAACAGCAGUUUCAUUGGUAAGUGUGGCU---
.((((((...((((((.((((((.((....))..((((((..((((.....))))..)).))))...))))))..))))))((((....))))...........))))))--- ( -47.70)
>DroVir_CAF1 87887 112 - 1
CAGCUACUAUGCCUGUGGCAAAUGGCAGGCGCUAUCGGCCGCCGAGGUGGCUGCCGGAGUGCAAGAGGGCGCAACGCAGGCAAACAGCACCUUGAUGGGUGAGUCCAAAAUA-
..(((....((((((((.....((((((.((((.((((...)))))))).))))))..((((......))))..)))))))).....(((((....))))))))........- ( -46.80)
>DroGri_CAF1 108439 113 - 1
CAGCUACUAUGCCUGCGGCAAGUGGCAACAGCAGCUGGCCGCACAAGUUGCAGCCGGUGUGCUCGAUGGCACCCGGCAGGCAAACAGCAGCUUUAUUGGUAUGUAAAAAGUGG
....(((.(((((((((((.(((.((....)).))).)))))).(((((((.(((((.(((((....)))))))))).(.....).)))))))....))))))))........ ( -48.60)
>DroSim_CAF1 2743 110 - 1
AAGCUACUAUGCCUGCGGCCUCUGGCAGGAGCAGUUGGCCAAGGAGGUUCACUCCGGGGUUCAAGAGGGCGCCAGGCAGGCGAACAGCAGUUUCAUUGGUAAGUGUGGUU---
.((((((..((((((((.(((((.((....))....((((..((((.....))))..))))..))))).)).)))))).((.....))................))))))--- ( -42.40)
>DroYak_CAF1 2754 110 - 1
AAGCUACUAUGCCUGCGGGCGCUGGCAGGAGCAGUUGGCCAAGGAGGUGCACUCCGGGGUCCAAGAGGGUGCCAGGCAGGCGAACAGCAGUUUCAUUGGUAAGUUGGUAA---
.((((((((.((((((.((((((.((....))..((((((..((((.....))))..)).))))...))))))..))))))((((....))))...)))).)))).....--- ( -44.30)
>DroAna_CAF1 3841 113 - 1
CAGCUACUAUGCUUGUGGUCAGUGGCAAGAGGAUUUGGCAAAGGAAGUGGAUGCUGGAGUCCAGGAGGGUUCCCGUCAAGCUAAUAGCAGCUUUAUUAGUAAGUAAAAAAUAG
..((((((..((.....)).))))))........(((((......(((....)))(((..((....))..))).)))))((((((((.....))))))))............. ( -25.50)
>consensus
AAGCUACUAUGCCUGCGGCCACUGGCAGGAGCAGUUGGCCAAGGAGGUGCACGCCGGGGUCCAAGAGGGCGCCAGGCAGGCGAACAGCAGCUUCAUUGGUAAGUAAAAAA___
..(((....((((((((((((...((....))...)))))...............((.((((....)))).))..)))))))...)))......................... (-21.32 = -22.60 +   1.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:30:17 2006