Locus 5150

Sequence ID	2L_DroMel_CAF1
Location	14,601,158 – 14,601,259
Length	101
Max. P	0.996227

overview

Window 3

Location	14,601,158 – 14,601,259
Length	101
Sequences	6
Columns	101
Reading direction	forward
Mean pairwise identity	93.47
Mean single sequence MFE	-36.95
Consensus MFE	-32.61
Energy contribution	-33.15
Covariance contribution	0.54
Combinations/Pair	1.00
Mean z-score	-2.68
Structure conservation index	0.88
SVM decision value	2.67
SVM RNA-class probability	0.996227
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14601158 101 + 22407834
UGGCAAAUAUAUCGAAGGGCCUGUAGCAUGGCUCGUAACCAUCCUCGGGCCCAUCGAGAUCUCGAUAGAGUUGCGAUCUCUGACUCUGAUCAGAAGCGUUU
..((.......((((.(((((((.((.((((.......)))).))))))))).))))..(((.((((((((((.(....)))))))).)))))).)).... ( -36.20)
>DroSec_CAF1 9634 101 + 1
UGGCAAAUAUAUCGAAGGGCCUGUAGCAUGGCUCGUAACCAUCCUCGGGCCCAUCGAGAUCUCGAUAGAGUUGCGAUCUCUGACUCUGAUCAGAAGCGUUU
..((.......((((.(((((((.((.((((.......)))).))))))))).))))..(((.((((((((((.(....)))))))).)))))).)).... ( -36.20)
>DroSim_CAF1 9932 101 + 1
UGGCAAAUAUAUCGAAGGGCCUGUAGCAUGGCUCGUAACCAUCCUCGGGCCCAUCGAGAUCUCGAUAGAGUUGCGAUCUCUGACUCUGAUCAGAAGCGUUU
..((.......((((.(((((((.((.((((.......)))).))))))))).))))..(((.((((((((((.(....)))))))).)))))).)).... ( -36.20)
>DroEre_CAF1 7448 101 + 1
UGGCAAAUAUAUCGAAGGGCCUGUAGCAUGGCUCGUAACCAUCCUCGGGCCCAUCGAGAUCUCGAUAGAGUUGGGAUCUCUGGCUCUGAUCAGAAGCGUUU
..((.......((((.(((((((.((.((((.......)))).))))))))).))))..(((.((((((((..(.....)..))))).)))))).)).... ( -39.80)
>DroYak_CAF1 9758 101 + 1
UGGCAAAUAUAUCGAAGGGCCUGUAGCAUGGCUCGUAACCAUCCUCGGGCCCAUCGAGAUCUCGAUAGAGUUGGGAUCUCUGACUCUGAUCAGAAGCGUUU
..((.......((((.(((((((.((.((((.......)))).))))))))).))))(((((((((...)))))))))(((((......))))).)).... ( -39.70)
>DroAna_CAF1 505 89 + 1
UGGCGAAUAUAUCGAAGGGCCUGUAGCAUGGCUCGUAACCAUCCCCGGGCCCAUCGAGAUCUCGCU------------CCGGGCUCUGAUCAGAAGCGUUU
.(((((.....((((.(((((((..(.((((.......)))))..))))))).))))....)))))------------....(((((....)).))).... ( -33.60)
>consensus
UGGCAAAUAUAUCGAAGGGCCUGUAGCAUGGCUCGUAACCAUCCUCGGGCCCAUCGAGAUCUCGAUAGAGUUGCGAUCUCUGACUCUGAUCAGAAGCGUUU
..((.......((((.(((((((..(.((((.......)))))..))))))).))))((((..(.(((((.......))))).)...))))....)).... (-32.61 = -33.15 +   0.54)

alignment

secondary structure

dotplot

Window 4

Location	14,601,158 – 14,601,259
Length	101
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	93.47
Mean single sequence MFE	-34.82
Consensus MFE	-30.93
Energy contribution	-31.50
Covariance contribution	0.57
Combinations/Pair	1.04
Mean z-score	-2.45
Structure conservation index	0.89
SVM decision value	2.48
SVM RNA-class probability	0.994490
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14601158 101 - 22407834
AAACGCUUCUGAUCAGAGUCAGAGAUCGCAACUCUAUCGAGAUCUCGAUGGGCCCGAGGAUGGUUACGAGCCAUGCUACAGGCCCUUCGAUAUAUUUGCCA
......(((((((....)))))))...(((((((....)))...((((.(((((.(((.(((((.....))))).)).).))))).)))).....)))).. ( -35.90)
>DroSec_CAF1 9634 101 - 1
AAACGCUUCUGAUCAGAGUCAGAGAUCGCAACUCUAUCGAGAUCUCGAUGGGCCCGAGGAUGGUUACGAGCCAUGCUACAGGCCCUUCGAUAUAUUUGCCA
......(((((((....)))))))...(((((((....)))...((((.(((((.(((.(((((.....))))).)).).))))).)))).....)))).. ( -35.90)
>DroSim_CAF1 9932 101 - 1
AAACGCUUCUGAUCAGAGUCAGAGAUCGCAACUCUAUCGAGAUCUCGAUGGGCCCGAGGAUGGUUACGAGCCAUGCUACAGGCCCUUCGAUAUAUUUGCCA
......(((((((....)))))))...(((((((....)))...((((.(((((.(((.(((((.....))))).)).).))))).)))).....)))).. ( -35.90)
>DroEre_CAF1 7448 101 - 1
AAACGCUUCUGAUCAGAGCCAGAGAUCCCAACUCUAUCGAGAUCUCGAUGGGCCCGAGGAUGGUUACGAGCCAUGCUACAGGCCCUUCGAUAUAUUUGCCA
....((....((((.((...((((.......)))).))..))))((((.(((((.(((.(((((.....))))).)).).))))).)))).......)).. ( -33.30)
>DroYak_CAF1 9758 101 - 1
AAACGCUUCUGAUCAGAGUCAGAGAUCCCAACUCUAUCGAGAUCUCGAUGGGCCCGAGGAUGGUUACGAGCCAUGCUACAGGCCCUUCGAUAUAUUUGCCA
....(((((((((....))))))).......(((....)))...((((.(((((.(((.(((((.....))))).)).).))))).)))).......)).. ( -33.50)
>DroAna_CAF1 505 89 - 1
AAACGCUUCUGAUCAGAGCCCGG------------AGCGAGAUCUCGAUGGGCCCGGGGAUGGUUACGAGCCAUGCUACAGGCCCUUCGAUAUAUUCGCCA
....(((.((....)))))...(------------.(((((((.((((.(((((..((.(((((.....))))).))...))))).)))).)).)))))). ( -34.40)
>consensus
AAACGCUUCUGAUCAGAGUCAGAGAUCGCAACUCUAUCGAGAUCUCGAUGGGCCCGAGGAUGGUUACGAGCCAUGCUACAGGCCCUUCGAUAUAUUUGCCA
....((....((((.((...((((.......)))).))..))))((((.(((((..((.(((((.....))))).))...))))).)))).......)).. (-30.93 = -31.50 +   0.57)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:18 2006