Locus 3646

Sequence ID	2L_DroMel_CAF1
Location	10,610,322 – 10,610,458
Length	136
Max. P	0.879187

overview

Window 1

Location	10,610,322 – 10,610,422
Length	100
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	93.75
Mean single sequence MFE	-24.76
Consensus MFE	-21.71
Energy contribution	-21.83
Covariance contribution	0.11
Combinations/Pair	1.14
Mean z-score	-1.71
Structure conservation index	0.88
SVM decision value	0.91
SVM RNA-class probability	0.879187
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10610322 100 + 22407834
ACGUCUUCAUUCGUCGCUGAUUUAUGGCCUAUUAAAUUGCAUUUGACCCUGCGGCUAACGGCUGCCCAUUUGUCAGCUCGAAUUUCCAAAU-UCCCACGCA
........(((((..((((((..((((....((((((...))))))....(((((.....)))))))))..)))))).)))))........-......... ( -24.50)
>DroSec_CAF1 89920 100 + 1
ACGUCUUCAUUCGUCGCUGAUUUAUGGCCUAUUAAAUUGCAUUUGGCCCUGCGGCUAACGGCUGCCCAUUUGUCAGCUCGAAUUUCCAAAU-UCCCACGCA
........(((((..((((((..((((((...............))))..(((((.....)))))..))..)))))).)))))........-......... ( -25.46)
>DroSim_CAF1 90466 100 + 1
ACGUCUUCAUUCGUCGCUGAUUUAUGGCCUAUUAAAUUGCAUUUGGCCCUGCGGCUAACGGCUGCCCAUUUGUCAGCUCGAAUUUCCAAAU-UCCCACGCA
........(((((..((((((..((((((...............))))..(((((.....)))))..))..)))))).)))))........-......... ( -25.46)
>DroEre_CAF1 90793 99 + 1
ACGUCUUCAUUCGUCGCUGAUUUAUGGCCUAUUAAAUUGCAUUUGGCCCU-CGGCUAACGGCUGCCCAUUUGUCAGCUCUAAUUUCCAAAU-UCCCACGCA
(((........))).((((((..((((.(.........((..((((((..-.))))))..)).).))))..))))))..............-......... ( -20.60)
>DroYak_CAF1 93228 101 + 1
ACGUCUUCAUUCGUCGCUGAUUUAUGGCCUAUUAAAUUGCAUUUGGCCCUGCGGCUAACGGCUGCCCAUUUGUCAGCUCGAAUUUCCAAAUUUCCCACGCA
........(((((..((((((..((((((...............))))..(((((.....)))))..))..)))))).))))).................. ( -25.46)
>DroAna_CAF1 92399 99 + 1
ACGGCUUUAUUCAUCGCUGAUUUAUGGCCUAUUAAAUUGCAUUUGGCCCUGCAGCGCUCGGCUGC-CAUUUGUCAGCUUAGAUUGCCAGGU-UCCCACGAA
..(((.....((...((((((..((((((...............))))..(((((.....)))))-.))..))))))...))..)))....-......... ( -27.06)
>consensus
ACGUCUUCAUUCGUCGCUGAUUUAUGGCCUAUUAAAUUGCAUUUGGCCCUGCGGCUAACGGCUGCCCAUUUGUCAGCUCGAAUUUCCAAAU_UCCCACGCA
........(((((..((((((..((((((...............))))..(((((.....)))))..))..)))))).))))).................. (-21.71 = -21.83 +   0.11)

alignment

secondary structure

dotplot

Window 2

Location	10,610,343 – 10,610,458
Length	115
Sequences	6
Columns	120
Reading direction	forward
Mean pairwise identity	78.02
Mean single sequence MFE	-30.65
Consensus MFE	-18.68
Energy contribution	-17.47
Covariance contribution	-1.22
Combinations/Pair	1.38
Mean z-score	-1.45
Structure conservation index	0.61
SVM decision value	0.09
SVM RNA-class probability	0.581018
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10610343 115 + 22407834
UUAUGGCCUAUUAAAUUGCAUUUGACCCUGCGGCUAACGGCUGCCCAUUUGUCAGCUCGAAUUUCCAAAU-UCCCACGCAGCCAGCU----AACAACGUGGCCAAUUCAAUGUCACGUUA
...((((.........(((..(((((...(((((.....)))))......)))))...(((((....)))-))....)))))))...----...((((((((.........)))))))). ( -26.90)
>DroPse_CAF1 91063 101 + 1
UUAUGGCCUAUUAAAUUGCAGUUGGCCCUGCGG--------UGUUCUGUGGCCGACUCGAGUUUCGAAAUUUCCCACGGCA-----------CAGACGUGGCCAAUUCAGUGUCACGUUA
...(((((............(((((((..((((--------....)))))))))))(((.....)))..........))).-----------))(((((((((......).)))))))). ( -32.70)
>DroEre_CAF1 90814 111 + 1
UUAUGGCCUAUUAAAUUGCAUUUGGCCCU-CGGCUAACGGCUGCCCAUUUGUCAGCUCUAAUUUCCAAAU-UCCCACGCAGCC-------GCUCAACGUGGCCAAUUCAAUGUCACGUUA
...((((.......((((...((((((..-((.....(((((((..(((((..((......))..)))))-......))))))-------).....)).))))))..))))))))..... ( -27.01)
>DroYak_CAF1 93249 120 + 1
UUAUGGCCUAUUAAAUUGCAUUUGGCCCUGCGGCUAACGGCUGCCCAUUUGUCAGCUCGAAUUUCCAAAUUUCCCACGCAGCCAGCCUUUGGCCAACGUGGCCAAUUCAAUGUCACGUUA
....((((.........(((........)))((((...((((((..(((((......)))))...............))))))))))...))))((((((((.........)))))))). ( -33.83)
>DroAna_CAF1 92420 107 + 1
UUAUGGCCUAUUAAAUUGCAUUUGGCCCUGCAGCGCUCGGCUGC-CAUUUGUCAGCUUAGAUUGCCAGGU-UCCCACGAAC-----------GGAACGUGGCCAAUUCAGUGUCACGUUA
....((((...............))))..(((((.....)))))-.....((..(((..((((((((.((-(((.......-----------))))).))).))))).)))...)).... ( -30.76)
>DroPer_CAF1 92981 101 + 1
UUAUGGCCUAUUAAAUUGCAGUUGGCCCUGCGG--------UGUUCUGUGGCCGACUCGAGUUUCGAAAUUUCCCACGGCA-----------CAGACGUGGCCAAUUCAGUGUCACGUUA
...(((((............(((((((..((((--------....)))))))))))(((.....)))..........))).-----------))(((((((((......).)))))))). ( -32.70)
>consensus
UUAUGGCCUAUUAAAUUGCAUUUGGCCCUGCGGCUAACGGCUGCCCAUUUGUCAGCUCGAAUUUCCAAAU_UCCCACGCAG___________CCAACGUGGCCAAUUCAAUGUCACGUUA
...(((...((((((((....(((((...(((((.....)))))......)))))....)))))...)))...)))..................((((((((.........)))))))). (-18.68 = -17.47 +  -1.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:39 2006