Locus 6751

Sequence ID	2L_DroMel_CAF1
Location	18,849,915 – 18,850,029
Length	114
Max. P	0.588422

overview

Window 0

Location	18,849,915 – 18,850,029
Length	114
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	83.33
Mean single sequence MFE	-42.10
Consensus MFE	-29.14
Energy contribution	-29.22
Covariance contribution	0.09
Combinations/Pair	1.26
Mean z-score	-1.91
Structure conservation index	0.69
SVM decision value	0.11
SVM RNA-class probability	0.588422
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18849915 114 + 22407834
AA---UAGAUAAUUGGCUAUCUGUGCGCCGUGGAAGCAUUUCUACUGUCGGGCAUCGCAUCCUGGCCGUGGACUCAGUA---CCGCCAGGUGCCCGACGAUGCCAGCGAAUUGUUCAUCG
..---..(((((((.(((....(.(((.(((((((....)))))).((((((((......((((((.(((.......))---).))))))))))))))).))))))).)))))))..... ( -41.10)
>DroVir_CAF1 951 114 + 1
CU---UAGCUAAUUGGCUUUAUUUGCGCCUUGGAGGCGCUGCUGCUGUCGGGCAUUGCCUCCUGGCCCUGGUCUCAGUA---UCGCCAGGUGCCCGACGAUGCCAGCGAGCUGUUCAUUG
..---(((((..(((((.......(((((.....)))))......(((((((((..(((....)))((((((.......---..)))))))))))))))..)))))..)))))....... ( -51.60)
>DroGri_CAF1 1234 114 + 1
CU---UAGAUAAUUGGCUAUAUUUGCGCCUUGGAGGCACUGCUGUUGUCCGGCAUUGCCUCGUGGCCCUGGUCCCAAUA---UCGUCAGGUGCCCGACGAUGCCAGCGAACUGUUUAUCG
..---..(((((..((.....((((((((...((((((.(((((.....))))).))))))..)))..((((......(---(((((.(....).)))))))))))))))))..))))). ( -40.10)
>DroWil_CAF1 836 117 + 1
UA---UAGAUAAUUGGUUAUCUUUGCGCCUUGGAGGCAUUUCUAUUGUCGGGCAUUGCUUCGUGGCCGUGGAUUCAGUAUUAUCGUCAGGUUCCCGAUGAUGCCAGUGAACUAUUUAUUG
..---..(((((.(((((((((.((.(((...((((((..(((......)))...))))))..))))).))))...(((((((((.........))))))))).....))))).))))). ( -30.30)
>DroMoj_CAF1 629 114 + 1
CU---UAGCUAAUUGGCUACAUUUGCGCCUUGGAGGCGCUCCUCUUGUCGGGCAUCGCCUCCUGGCCCUGGUCGCAGUA---UCGCCAGGUGCCCGACGAUGCCAGCGAACUAUUUAUCG
..---(((.(..(((((.......(((((.....))))).....((((((((((..(((....)))(((((.((.....---.))))))))))))))))).)))))..).)))....... ( -47.60)
>DroAna_CAF1 861 117 + 1
AAUUUUAGAUAAUUGGCUACAUGUGCGCCUUGGAGGCAUUUCUUUUGUCGGGCAUCGCAUCCUGGCCGUGGACUCAGUA---CCGUCAGGUGCCCGACGAUGCCAGCGAAUUGUUUAUCG
.....(((((((((.(((....(.(((((.....))).......((((((((((......((((((.(((.......))---).)))))))))))))))).)))))).)))))))))... ( -41.90)
>consensus
CA___UAGAUAAUUGGCUAUAUUUGCGCCUUGGAGGCACUUCUAUUGUCGGGCAUCGCCUCCUGGCCCUGGACUCAGUA___UCGCCAGGUGCCCGACGAUGCCAGCGAACUGUUUAUCG
.....(((.(..(((((.........(((.....)))......((((((((((((((((....)))..(((..............)))))))))))))))))))))..).)))....... (-29.14 = -29.22 +   0.09)

alignment

secondary structure

dotplot

Window 1

Location	18,849,915 – 18,850,029
Length	114
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	83.33
Mean single sequence MFE	-40.10
Consensus MFE	-23.78
Energy contribution	-24.08
Covariance contribution	0.31
Combinations/Pair	1.10
Mean z-score	-2.41
Structure conservation index	0.59
SVM decision value	-0.03
SVM RNA-class probability	0.520702
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18849915 114 - 22407834
CGAUGAACAAUUCGCUGGCAUCGUCGGGCACCUGGCGG---UACUGAGUCCACGGCCAGGAUGCGAUGCCCGACAGUAGAAAUGCUUCCACGGCGCACAGAUAGCCAAUUAUCUA---UU
.(((((........(((((..(((((((((((((((.(---(.........)).))))))......))))))))((((....)))).....)..)).)))........)))))..---.. ( -40.69)
>DroVir_CAF1 951 114 - 1
CAAUGAACAGCUCGCUGGCAUCGUCGGGCACCUGGCGA---UACUGAGACCAGGGCCAGGAGGCAAUGCCCGACAGCAGCAGCGCCUCCAAGGCGCAAAUAAAGCCAAUUAGCUA---AG
........((((.(.((((...((((((((((((((..---......).)))))(((....)))..)))))))).......(((((.....))))).......)))).).)))).---.. ( -51.20)
>DroGri_CAF1 1234 114 - 1
CGAUAAACAGUUCGCUGGCAUCGUCGGGCACCUGACGA---UAUUGGGACCAGGGCCACGAGGCAAUGCCGGACAACAGCAGUGCCUCCAAGGCGCAAAUAUAGCCAAUUAUCUA---AG
.(((((.....(((.((((((((((((....)))))))---).(((....))).)))))))(((..(((.(.....).)))(((((.....))))).......)))..)))))..---.. ( -42.20)
>DroWil_CAF1 836 117 - 1
CAAUAAAUAGUUCACUGGCAUCAUCGGGAACCUGACGAUAAUACUGAAUCCACGGCCACGAAGCAAUGCCCGACAAUAGAAAUGCCUCCAAGGCGCAAAGAUAACCAAUUAUCUA---UA
.........(((((.((..(((.((((....)))).)))..)).)))))...(((.((........)).)))...........(((.....)))....((((((....)))))).---.. ( -20.90)
>DroMoj_CAF1 629 114 - 1
CGAUAAAUAGUUCGCUGGCAUCGUCGGGCACCUGGCGA---UACUGCGACCAGGGCCAGGAGGCGAUGCCCGACAAGAGGAGCGCCUCCAAGGCGCAAAUGUAGCCAAUUAGCUA---AG
.......(((((.(.((((...(((((((((((((((.---.....)).)))))(((....)))..)))))))).......(((((.....))))).......)))).).)))))---.. ( -51.90)
>DroAna_CAF1 861 117 - 1
CGAUAAACAAUUCGCUGGCAUCGUCGGGCACCUGACGG---UACUGAGUCCACGGCCAGGAUGCGAUGCCCGACAAAAGAAAUGCCUCCAAGGCGCACAUGUAGCCAAUUAUCUAAAAUU
(((........))).((((...((((((((((....))---).(((.((.....)))))........))))))).........(((.....))).........))))............. ( -33.70)
>consensus
CGAUAAACAGUUCGCUGGCAUCGUCGGGCACCUGACGA___UACUGAGACCACGGCCAGGAGGCAAUGCCCGACAACAGAAAUGCCUCCAAGGCGCAAAUAUAGCCAAUUAUCUA___AG
...............((((...((((((((..............((....))..((......))..))))))))........((((.....))))........))))............. (-23.78 = -24.08 +   0.31)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:07 2006