Locus 755

Sequence ID	3L_DroMel_CAF1
Location	2,250,616 – 2,250,757
Length	141
Max. P	0.643538

overview

Window 4

Location	2,250,616 – 2,250,736
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	81.11
Mean single sequence MFE	-39.91
Consensus MFE	-26.76
Energy contribution	-27.35
Covariance contribution	0.59
Combinations/Pair	1.39
Mean z-score	-1.57
Structure conservation index	0.67
SVM decision value	0.23
SVM RNA-class probability	0.643538
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2250616 120 - 23771897
AGGUCUCGCCAUCGUUGCACCUGUGCAGCGAGGGGUAGAUGACGAUGGUGUCGUUCAGGUUCUGGUUAACCGUCGACUUGCACACGUAGAAGAUAUUGGGAUUGGUGGGCCAGGCGGCCA
.(((((((((.((((((((....))))))))..))).((((.(((((((.....((((...))))...)))))))..((((....))))....))))))))))....((((....)))). ( -41.70)
>DroVir_CAF1 1196 120 - 1
AGAUUUCGCCAUCGUUGCAGCGAUGCAGCGAGGGGUAAAUGACCACAGUAUCGUUUAGAUUUUGGUUAACCGUCGACUUGCACACAUAAAAGAUAUUGGGGUUACUGGGCCAGGCGGCGA
.....(((((.((((((((....))))))))..(((...(((((.(((((((.((((......((((.......))))........)))).))))))).)))))....)))....))))) ( -39.54)
>DroGri_CAF1 1281 120 - 1
AGAUUUCACCAUCAUUGCAGCGAUGCAGUGAAGGAUAAAUGACAACGGUAUCGUUCAGAUUCUGAUUCACCGUUGACUUGCACACGUAGAAGAUGUUGGGAUUACUCGGCCAGGCGGCCA
.(((..((((.((((((((....)))))))).))........(((((((.....((((...))))...))))))).....................))..)))....((((....)))). ( -37.00)
>DroWil_CAF1 1363 120 - 1
AUAUCUCACCAUCGUUGCAACGAUGCAGCGAUGGAUAUAUAACGAUGGUAUCGUUCAAAUUUUGUUUCACCGGUGCUUUGCAGACAUAGAAAAUGUUUGCAUUGGUGGGCCAUGGUGCCA
........(((((((((((....)))))))))))...........((((((((.........((..(((((((.....(((((((((.....))))))))))))))))..)))))))))) ( -42.90)
>DroMoj_CAF1 1342 120 - 1
AGAUCUCCCCGUCGUUGCAGCGAUGCAGCGAUGGAUAAAUGACGACAGAAUCAUUGAGAUUCUGAUUCACCGUCGACUUGCACACGUAGAAUAUGUUGGGAUUACUGGGCCAGGCGGCCA
.((((((.(((((((((((....)))))))))))......((((.(((((((.....)))))))((((..(((..........)))..)))).))))))))))....((((....)))). ( -43.50)
>DroAna_CAF1 1202 120 - 1
AGAUCUCCCCGUCAUUGCAGCGAUGCAGCGAGGGAUAUAUUACGAGGGAAUCGUUCAGGUUCUGGUUAACUGUCGACUUGCAAACGUAGAAAAUAUUGGGGUUAGAGGGCCAGGCGGCCA
...((((((((....((((....))))(((((.((((....((...((((((.....)))))).))....))))..)))))...............)))))..))).((((....)))). ( -34.80)
>consensus
AGAUCUCACCAUCGUUGCAGCGAUGCAGCGAGGGAUAAAUGACGACGGUAUCGUUCAGAUUCUGGUUAACCGUCGACUUGCACACGUAGAAGAUAUUGGGAUUACUGGGCCAGGCGGCCA
.((((((.((.((((((((....)))))))).))........(((((((.....((((...))))...)))))))......................))))))....((((....)))). (-26.76 = -27.35 +   0.59)

alignment

secondary structure

dotplot

Window 5

Location	2,250,656 – 2,250,757
Length	101
Sequences	6
Columns	101
Reading direction	reverse
Mean pairwise identity	80.40
Mean single sequence MFE	-32.58
Consensus MFE	-21.72
Energy contribution	-21.00
Covariance contribution	-0.72
Combinations/Pair	1.38
Mean z-score	-1.47
Structure conservation index	0.67
SVM decision value	0.22
SVM RNA-class probability	0.638041
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2250656 101 - 23771897
UGCGGCAGACGUAGUCCACGAAGGUCUCGCCAUCGUUGCACCUGUGCAGCGAGGGGUAGAUGACGAUGGUGUCGUUCAGGUUCUGGUUAACCGUCGACUUG
((((.....))))(((.......((((((((.((((((((....))))))))..))).)).)))((((((.....((((...))))...)))))))))... ( -35.90)
>DroVir_CAF1 1236 101 - 1
GACGGCACACGAAAUCCGCAAAGAUUUCGCCAUCGUUGCAGCGAUGCAGCGAGGGGUAAAUGACCACAGUAUCGUUUAGAUUUUGGUUAACCGUCGACUUG
(((((.((.(((((((......)))))))((.((((((((....)))))))).))))...((((((....(((.....)))..)))))).)))))...... ( -36.30)
>DroGri_CAF1 1321 101 - 1
GACUGCAAACGAAGUUCGAAAAGAUUUCACCAUCAUUGCAGCGAUGCAGUGAAGGAUAAAUGACAACGGUAUCGUUCAGAUUCUGAUUCACCGUUGACUUG
..........((((((......)))))).((.((((((((....)))))))).))........(((((((.....((((...))))...)))))))..... ( -28.40)
>DroMoj_CAF1 1382 101 - 1
GACGACAGACGAAAUCCGCAAAGAUCUCCCCGUCGUUGCAGCGAUGCAGCGAUGGAUAAAUGACGACAGAAUCAUUGAGAUUCUGAUUCACCGUCGACUUG
..((((....((.(((......))).)).(((((((((((....))))))))))).....(((...(((((((.....)))))))..)))..))))..... ( -33.70)
>DroAna_CAF1 1242 101 - 1
CACGGCACACAUAGUCCAUGAAGAUCUCCCCGUCAUUGCAGCGAUGCAGCGAGGGAUAUAUUACGAGGGAAUCGUUCAGGUUCUGGUUAACUGUCGACUUG
..(((((....(((.((.(((((((..((((.((.(((((....))))).)).))...........))..))).))))))..)))......)))))..... ( -25.70)
>DroPer_CAF1 529 101 - 1
AGCGGCAGACAAAGUCCACAAAGGUCUCUCCGUCGUUGCAGCGAUGCAGCGAGGGAUAGAUGACGAUCGUGUCGUUCAGAUUCUGAUUCACCGUCGACUUG
...........(((((.......((((.(((.((((((((....)))))))).))).))))((((...(((....((((...))))..)))))))))))). ( -35.50)
>consensus
GACGGCAGACGAAGUCCACAAAGAUCUCCCCAUCGUUGCAGCGAUGCAGCGAGGGAUAAAUGACGACGGUAUCGUUCAGAUUCUGAUUAACCGUCGACUUG
..((((.................((((..((.((((((((....)))))))).))..)))).....(((.(((.....))).))).......))))..... (-21.72 = -21.00 +  -0.72)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:27 2006