Locus 187

Sequence ID	2L_DroMel_CAF1
Location	571,037 – 571,197
Length	160
Max. P	0.804901

overview

Window 8

Location	571,037 – 571,157
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	88.89
Mean single sequence MFE	-38.67
Consensus MFE	-28.37
Energy contribution	-29.60
Covariance contribution	1.23
Combinations/Pair	1.11
Mean z-score	-2.63
Structure conservation index	0.73
SVM decision value	0.43
SVM RNA-class probability	0.734945
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 571037 120 - 22407834
CUUUGAUGUACUGCGGUUCCACACCAUCGGUGGCGCAACAUUGCUUCACCACCUUUAGUACAAUCUUUUUCAUUUCCUCAUCUGGAGACUGGAACUCGCGGAUAAGAAUCAACAUCACUU
..(((((.(((((((((((((.......(((((.(((....))).)))))......................(((((......))))).)))))).))))).))...)))))........ ( -34.40)
>DroPse_CAF1 11415 120 - 1
CCUUGAUGUACUGCGGCUCCACGCCGUCGGUGGCGCAACACUGCUUCACCACUUUGAGGACAAUCUUCUUCAUCUCCUCGUCGGGCGAUUGGAACUCUCGAAUGAGGAUCAGCAUCACCU
...((((((...(((((.....))))).(((((.(((....))).)))))....((((((......))))))..(((((((((((.(.......).)))).)))))))...))))))... ( -40.80)
>DroPer_CAF1 11399 120 - 1
CCUUGAUGUACUGCGGCUCCACGCCGUCGGUGGCGCAACACUGCUUCACCACUUUGAGGACAAUCUUCUUCAUCUCCUCGUCGGGCGAUUGGAACUCUCGAAUGAGGAUCAGCAUCACCU
...((((((...(((((.....))))).(((((.(((....))).)))))....((((((......))))))..(((((((((((.(.......).)))).)))))))...))))))... ( -40.80)
>consensus
CCUUGAUGUACUGCGGCUCCACGCCGUCGGUGGCGCAACACUGCUUCACCACUUUGAGGACAAUCUUCUUCAUCUCCUCGUCGGGCGAUUGGAACUCUCGAAUGAGGAUCAGCAUCACCU
...((((((...(((((.....))))).(((((.(((....))).)))))....((((((......))))))..(((((((((((.(.......).))))).))))))...))))))... (-28.37 = -29.60 +   1.23)

alignment

secondary structure

dotplot

Window 9

Location	571,077 – 571,197
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	91.39
Mean single sequence MFE	-41.50
Consensus MFE	-35.15
Energy contribution	-33.93
Covariance contribution	-1.21
Combinations/Pair	1.13
Mean z-score	-2.35
Structure conservation index	0.85
SVM decision value	0.63
SVM RNA-class probability	0.804901
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 571077 120 + 22407834
UGAGGAAAUGAAAAAGAUUGUACUAAAGGUGGUGAAGCAAUGUUGCGCCACCGAUGGUGUGGAACCGCAGUACAUCAAAGAGGAGAUUCUUCCGCACUUUUUCAAGUUCUUCUGGAAUCA
.((((((.((((((((..((((((...(((((((.(((...))).)))))))(.((((.....))))))))))).....(.((((....)))).).))))))))..))))))........ ( -39.40)
>DroPse_CAF1 11455 120 + 1
CGAGGAGAUGAAGAAGAUUGUCCUCAAAGUGGUGAAGCAGUGUUGCGCCACCGACGGCGUGGAGCCGCAGUACAUCAAGGAGGAGAUCCUACCGCACUUCUUCAAGUUCUUCUGGAAUCA
(.((((((((((((((.(((....))).(((((...((.((.(..((((......))))..).)).)).........((((.....))))))))).))))))))...)))))).)..... ( -42.40)
>DroPer_CAF1 11439 120 + 1
CGAGGAGAUGAAGAAGAUUGUCCUCAAAGUGGUGAAGCAGUGUUGCGCCACCGACGGCGUGGAGCCGCAGUACAUCAAGGAGGAAAUCCUGCCGCACUUCUUCAAGUUCUUCUGGAAUCA
(.((((((((((((((.(((....))).(((((...((.((.(..((((......))))..).)).)).........((((.....))))))))).))))))))...)))))).)..... ( -42.70)
>consensus
CGAGGAGAUGAAGAAGAUUGUCCUCAAAGUGGUGAAGCAGUGUUGCGCCACCGACGGCGUGGAGCCGCAGUACAUCAAGGAGGAGAUCCUACCGCACUUCUUCAAGUUCUUCUGGAAUCA
.((((((.((((((((..(((.((....((((((.(((...))).)))))).(.((((.....))))))).)))....(((((....))).))...))))))))..))))))........ (-35.15 = -33.93 +  -1.21)

alignment

secondary structure

dotplot

Window 0

Location	571,077 – 571,197
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	91.39
Mean single sequence MFE	-36.87
Consensus MFE	-30.91
Energy contribution	-30.80
Covariance contribution	-0.11
Combinations/Pair	1.08
Mean z-score	-2.18
Structure conservation index	0.84
SVM decision value	0.37
SVM RNA-class probability	0.708611
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 571077 120 - 22407834
UGAUUCCAGAAGAACUUGAAAAAGUGCGGAAGAAUCUCCUCUUUGAUGUACUGCGGUUCCACACCAUCGGUGGCGCAACAUUGCUUCACCACCUUUAGUACAAUCUUUUUCAUUUCCUCA
........((.(((..((((((((....(((((......)))))..(((((((.(((.....)))...(((((.(((....))).))))).....)))))))..)))))))).))).)). ( -31.70)
>DroPse_CAF1 11455 120 - 1
UGAUUCCAGAAGAACUUGAAGAAGUGCGGUAGGAUCUCCUCCUUGAUGUACUGCGGCUCCACGCCGUCGGUGGCGCAACACUGCUUCACCACUUUGAGGACAAUCUUCUUCAUCUCCUCG
.(((...((((((.((..(((.((((((..((((.....))))...))))))(((((.....))))).(((((.(((....))).))))).)))..)).....))))))..)))...... ( -39.80)
>DroPer_CAF1 11439 120 - 1
UGAUUCCAGAAGAACUUGAAGAAGUGCGGCAGGAUUUCCUCCUUGAUGUACUGCGGCUCCACGCCGUCGGUGGCGCAACACUGCUUCACCACUUUGAGGACAAUCUUCUUCAUCUCCUCG
.(((...((((((.((..(((.((((((..((((.....))))...))))))(((((.....))))).(((((.(((....))).))))).)))..)).....))))))..)))...... ( -39.10)
>consensus
UGAUUCCAGAAGAACUUGAAGAAGUGCGGAAGGAUCUCCUCCUUGAUGUACUGCGGCUCCACGCCGUCGGUGGCGCAACACUGCUUCACCACUUUGAGGACAAUCUUCUUCAUCUCCUCG
........((.((...((((((((...((........))(((((((.((...(((((.....))))).(((((.(((....))).))))))).)))))))....))))))))..)).)). (-30.91 = -30.80 +  -0.11)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:28:44 2006