Locus 6165

Sequence ID	3L_DroMel_CAF1
Location	16,339,810 – 16,339,928
Length	118
Max. P	0.507585

overview

Window 8

Location	16,339,810 – 16,339,916
Length	106
Sequences	6
Columns	106
Reading direction	reverse
Mean pairwise identity	84.78
Mean single sequence MFE	-35.68
Consensus MFE	-25.19
Energy contribution	-25.14
Covariance contribution	-0.05
Combinations/Pair	1.44
Mean z-score	-2.15
Structure conservation index	0.71
SVM decision value	-0.05
SVM RNA-class probability	0.507585
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16339810 106 - 23771897
CGAUGUGGGGCAGGAAACCGCAACUGAUGUCGGAAGACAGUUUCGAGGGCGGCAUCGAUAGUGGAAUGAUGCUGCAGCUGGAGAAGAAUCUGGUGGACAUCGUCGA
((((..(..((.(....).))..).((((((.(.(((...((((.((.(((((((((.........)))))))))..)).))))....)))..).)))))))))). ( -38.60)
>DroPse_CAF1 20905 106 - 1
AGAUGUGGGGCAGGAAGCCGCAGCUGCUGUCGGAGGAUAGCUUCGAGGGCGGCAUCGACAGUGGGAUGAUGCUGCAGCUGGAGAAGAAUCUGGUAGACAUUGUGGA
.....((.(((.....))).))((((((.((((((.....)))))).)))))).((.((((((((......))...((..((......))..))...)))))).)) ( -39.80)
>DroEre_CAF1 22244 106 - 1
CGGUGUGGAGCAGGAAGCCACAGCUAAUGUCGGAGGACAGUUUCGAGGGCGGAAUCGACAGUGGAAUGAUGCUGCAGCUAGAGAAGAACCUGGUGGAUAUCGUCGA
(((((((.((((.....((((......((((....))))((((((....)))))).....)))).....)))).).(((((........)))))..)))))).... ( -29.00)
>DroWil_CAF1 21190 106 - 1
AAUUAUUGGUUCGUAAGCCUCAGCUGAUGUCGGAGGAUAGCUUCGAAGGGGGCAUCGAUAGCUGUAUGAUGCGGCAGCUGGAAAAGAAUCUGGUUGAUAUUGUCGA
................(((((........((((((.....))))))..))))).(((((((((((.....)))))(((..((......))..))).....)))))) ( -30.30)
>DroAna_CAF1 20750 106 - 1
CAAUAUGGGGCAGGAAGCCGCAGUUGAUGUCGGAGGACAGCUUCGAGGGUGGCAUCGAUAGCGGAAUGAUGCUGCAGUUGGAGAAGAACCUGGUGGACAUCGUUGA
((((.((.(((.....))).))...((((((.((((....((((((..(..((((((.........))))))..)..)))))).....)))..).)))))))))). ( -36.60)
>DroPer_CAF1 20910 106 - 1
AGAUGUGGGGCAGGAAGCCGCAGCUGCUGUCGGAGGAUAGCUUCGAGGGCGGCAUCGACAGUGGGAUGAUGCUGCAGCUGGAGAAGAAUCUGGUAGACAUUGUGGA
.....((.(((.....))).))((((((.((((((.....)))))).)))))).((.((((((((......))...((..((......))..))...)))))).)) ( -39.80)
>consensus
AGAUGUGGGGCAGGAAGCCGCAGCUGAUGUCGGAGGACAGCUUCGAGGGCGGCAUCGACAGUGGAAUGAUGCUGCAGCUGGAGAAGAAUCUGGUGGACAUCGUCGA
.(((((..(.((((......(((((..(.((((((.....)))))).)(((((((((.(.....).))))))))))))))........)))).)..)))))..... (-25.19 = -25.14 +  -0.05)

alignment

secondary structure

dotplot

Window 9

Location	16,339,838 – 16,339,928
Length	90
Sequences	6
Columns	90
Reading direction	reverse
Mean pairwise identity	82.07
Mean single sequence MFE	-33.25
Consensus MFE	-18.46
Energy contribution	-18.57
Covariance contribution	0.11
Combinations/Pair	1.43
Mean z-score	-2.16
Structure conservation index	0.56
SVM decision value	-0.05
SVM RNA-class probability	0.506845
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16339838 90 - 23771897
AGCAGCAACAGCCGAUGUGGGGCAGGAAACCGCAACUGAUGUCGGAAGACAGUUUCGAGGGCGGCAUCGAUAGUGGAAUGAUGCUGCAGC
.((((((.((((((...((..((.(....).........((((....))))))..))....)))).((.......)).)).))))))... ( -32.90)
>DroEre_CAF1 22272 90 - 1
AGCAGCAGCAGCCGGUGUGGAGCAGGAAGCCACAGCUAAUGUCGGAGGACAGUUUCGAGGGCGGAAUCGACAGUGGAAUGAUGCUGCAGC
.((((((....(((.(((.((.......(((........((((....))))........)))....)).))).))).....))))))... ( -31.69)
>DroWil_CAF1 21218 90 - 1
AGCAGCAGCAGCAAUUAUUGGUUCGUAAGCCUCAGCUGAUGUCGGAGGAUAGCUUCGAAGGGGGCAUCGAUAGCUGUAUGAUGCGGCAGC
.((.((((((((...(((((((.......((((.((....))..))))...(((((....)))))))))))))))))....))).))... ( -29.00)
>DroYak_CAF1 28299 90 - 1
AGCAACAGCAGCCAGUGUGGGGCAGGAAGCCACAACUGAUGUCGGAGGACAGUUUCGAGGGCGGAAUCGACAGUGGAAUGAUGCUGCAGU
.((..(((((.(((.(((.((((.....)))....(((.(.((((((.....)))))).).)))...).))).))).....)))))..)) ( -27.90)
>DroAna_CAF1 20778 90 - 1
AGCUGCAGCAGCCAAUAUGGGGCAGGAAGCCGCAGUUGAUGUCGGAGGACAGCUUCGAGGGUGGCAUCGAUAGCGGAAUGAUGCUGCAGU
.((((((((((((.......)))......((((.((((((((((((((....)))).....)))))))))).)))).....))))))))) ( -40.40)
>DroPer_CAF1 20938 87 - 1
AGUCGUCG---CAGAUGUGGGGCAGGAAGCCGCAGCUGCUGUCGGAGGAUAGCUUCGAGGGCGGCAUCGACAGUGGGAUGAUGCUGCAGC
.((((((.---((..(((.((((.....)))...((((((.((((((.....)))))).))))))..).))).)).))))))........ ( -37.60)
>consensus
AGCAGCAGCAGCCAAUGUGGGGCAGGAAGCCGCAGCUGAUGUCGGAGGACAGCUUCGAGGGCGGCAUCGACAGUGGAAUGAUGCUGCAGC
.((.((((((.(((.(((.((.......(((........((((....))))........)))....)).))).))).....)))))).)) (-18.46 = -18.57 +   0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:11:41 2006