Locus 4531

Sequence ID	3R_DroMel_CAF1
Location	12,023,927 – 12,024,102
Length	175
Max. P	0.758762

overview

Window 6

Location	12,023,927 – 12,024,022
Length	95
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	83.65
Mean single sequence MFE	-31.27
Consensus MFE	-21.53
Energy contribution	-21.78
Covariance contribution	0.25
Combinations/Pair	1.30
Mean z-score	-2.76
Structure conservation index	0.69
SVM decision value	0.50
SVM RNA-class probability	0.758762
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12023927 95 + 27905053
UUCUACUUGCUCUCGAUGUUCUUGAGCGGCACCAUUUGCUCCGGAUCGUCGGGAUAUACGCUAUUCUGGCGCUUUUUGCGACCAGCACACUGACU
.((....(((((((((((.(((.((((((......)))))).))).))))))))............((((((.....))).))))))....)).. ( -31.00)
>DroVir_CAF1 12420 95 + 1
UAUUAUUUGGUUUCAAUAGUUUUGAGCGGCACCAUUUGUUCUGGAUCGUCGGGAUAAGUACUGUCCUGGCGCUGUUUGGGACCAGCACAUUGACU
......(((((..(((.........(((((.(((.......)))...(((((((((.....)))))))))))))))))..))))).......... ( -29.80)
>DroPse_CAF1 10552 95 + 1
CUUCAUUUGCUUUCGAUAUUCUUGAGCGGCACCAUCUGCUCGGGAUCGUCCGGGUAAAUACUAUUCUGGCGCUUCUUGCGACCAGCACACUGACU
....((((((((..(((..((((((((((......))))))))))..))).))))))))......(((((((.....))).)))).......... ( -31.60)
>DroGri_CAF1 2686 95 + 1
UUCUAUUUGCUUUCAAUGUUUUUCAGCGGUACCAUUUGCUCGGGAUCGUCGGGAUAAAUACUAUCCUGUCGCUGUUUGCGACCAGCACAUUGACU
............(((((((....(((((((.((........)).)))(.(((((((.....))))))).)))))...((.....))))))))).. ( -25.90)
>DroMoj_CAF1 10730 95 + 1
UCUUAUUUACUUUCGAUGGUCUUGAGCGGCACCAUUUGCUCAGGAUCGUCGGGAUAAAUACUAUCCUGGCGUGGCUUCCGGCCAGCACAUUGGCU
...((((((.(..((((((((((((((((......))))))))))))))))..))))))).....(((((.(((...)))))))).......... ( -37.70)
>DroPer_CAF1 10565 95 + 1
CUUCAUUUGCUUUCGAUAUUCUUGAGCGGCACCAUCUGCUCGGGAUCGUCCGGGUAAAUACUAUUCUGGCGCUUCUUGCGACCAGCACACUGACU
....((((((((..(((..((((((((((......))))))))))..))).))))))))......(((((((.....))).)))).......... ( -31.60)
>consensus
UUUUAUUUGCUUUCGAUAUUCUUGAGCGGCACCAUUUGCUCGGGAUCGUCGGGAUAAAUACUAUCCUGGCGCUGCUUGCGACCAGCACACUGACU
.......((((.(((....((((((((((......)))))))))).((((((((((.....)))))))))).......)))..))))........ (-21.53 = -21.78 +   0.25)

alignment

secondary structure

dotplot

Window 7

Location	12,023,982 – 12,024,102
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	84.61
Mean single sequence MFE	-41.92
Consensus MFE	-32.32
Energy contribution	-32.60
Covariance contribution	0.28
Combinations/Pair	1.30
Mean z-score	-1.68
Structure conservation index	0.77
SVM decision value	-0.02
SVM RNA-class probability	0.521258
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12023982 120 - 27905053
UCCUGCCGGAGACAAUGAACCAGCCCAUGCCCGAGUCCAUUGAGGAUGGAGAGAACUUCGGAAAGGGAGAUACUUGGUUCAGUCAGUGUGCUGGUCGCAAAAAGCGCCAGAAUAGCGUAU
(((....)))(((..((((((((......(((..((((.....))))((((....)))).....)))......))))))))))).((...((((.(((.....)))))))....)).... ( -37.80)
>DroVir_CAF1 12475 120 - 1
UCCUGCCAGAGACAAUGAACAAGCCCAUGCCAGAGUCCAUUGAGGAUGGCGAGAACUUUGGCAAGGGCGACACCUGGUUCAGUCAAUGUGCUGGUCCCAAACAGCGCCAGGACAGUACUU
(((((.....(((..(((((..((((.((((((((((((((...))))).....))))))))).))))..(....)))))))))...((((((........)))))))))))........ ( -46.00)
>DroGri_CAF1 2741 120 - 1
UCUUACCGGAAACAAUGAACCAGCCGAUGCCAGAGUCCAUUGAGGAUGGCGAGAACUUUGGCAAGGGCGAUACCUGGUUCAGUCAAUGUGCUGGUCGCAAACAGCGACAGGAUAGUAUUU
.......(....)..((((((((((..((((((((((((((...))))).....)))))))))..)))......))))))).....(((.(((.((((.....))))))).)))...... ( -40.30)
>DroWil_CAF1 2144 120 - 1
UUUUGCCGGAGACAAUGAAUCAACCGAUGCCCGAAUCAAUUGAGGAUGGUGAAAACUUUGGCAAAGGUGAUACUUGGUUCAGUCAGUGUGCUGGUCGUAAACCACGACAGAAUAGUAUUU
(((((((((((.......(((....)))(((....((....))....))).....)))))))))))..((((((..((((...(((....)))(((((.....))))).)))))))))). ( -30.40)
>DroMoj_CAF1 10785 120 - 1
UCCUGCCGGAAACAAUGAACAAGCCCAUGCCAGAGUCCAUUGAGGAUGGCGAGAACUUUGGCAAGGGUGACACCUGGUUCAGCCAAUGUGCUGGCCGGAAGCCACGCCAGGAUAGUAUUU
(((((.((..............((((.((((((((((((((...))))).....))))))))).)))).....(((((.((((......)))))))))......)).)))))........ ( -43.30)
>DroAna_CAF1 2241 120 - 1
UCCUGCCGGAGACAAUGAACCAGCCCAUGCCGGAGUCCAUCGAGGACGGCGAGAACUUCGGCAAGGGCGACACCUGGUUCAGCCAGUGUGCCGGCCGGAAGCAGCGCCAGGACAGCGUCU
(((.(((((..(((.(((((((((((.(((((((((...(((.......)))..))))))))).))))......))))))).....))).))))).)))....((((.......)))).. ( -53.70)
>consensus
UCCUGCCGGAGACAAUGAACCAGCCCAUGCCAGAGUCCAUUGAGGAUGGCGAGAACUUUGGCAAGGGCGACACCUGGUUCAGUCAAUGUGCUGGUCGCAAACAGCGCCAGGAUAGUAUUU
(((((((((..(((.(((((((((((.((((((((((((((...))))).....))))))))).)))......)))))))).....))).)))))(((.....)))..))))........ (-32.32 = -32.60 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:34 2006