Locus 6315

Sequence ID	3L_DroMel_CAF1
Location	16,870,662 – 16,870,762
Length	100
Max. P	0.891108

overview

Window 9

Location	16,870,662 – 16,870,762
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	74.60
Mean single sequence MFE	-34.02
Consensus MFE	-14.69
Energy contribution	-14.42
Covariance contribution	-0.27
Combinations/Pair	1.52
Mean z-score	-2.10
Structure conservation index	0.43
SVM decision value	0.68
SVM RNA-class probability	0.820867
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16870662 100 + 23771897
GAAGGAAAAGUCCGGUUCUGAUAGUGAGAAAUAUGCCUUGUGGGCCAAGACCAGGGAACUGGAAAGAUCACAUUCCGGUACCCGACACUCAGAUGUUGAU
...(((....)))...(((((..(((........(((.....)))........(((.(((((((........))))))).)))..))))))))....... ( -27.70)
>DroPse_CAF1 61639 100 + 1
CAAGGAAAAGUCCGGUUCGGAGAGCGAGCGCUACGCCCUGUGGGCCAAGACACGGGAGCUGGAGAGGUCCAGCUCCCGGCAUCGACACACCGACGUGGAC
.........(((((..((((.(.((((((.....((((...)))).......(((((((((((....))))))))))))).))).).).))))..))))) ( -46.20)
>DroEre_CAF1 61056 100 + 1
GAAGGAAAAGUCCGGUUCUGAAAGUGAGAAGUACGCCUUGUGGGCCAAGACCAGGCAACUGGAAAGAUCGCAUUCCAGUACCAGGCACUCAGAAGUGGAC
.........(((((.((((((..(((.....)))((((.((..(((.......))).(((((((........))))))))).))))..)))))).))))) ( -35.30)
>DroYak_CAF1 60411 100 + 1
GAAGGAAAAGUCCGGUUCUGAAAGUGAGAAAUACGCUCUGUGGGCCAAGACCAGGGAACUGGAAAGAUCGCAUUCCAGUACCCGACACUCAGAUGUUGAC
...(((....)))...(((((.(((((....).))))..(((((......)).(((.(((((((........))))))).)))..))))))))....... ( -27.90)
>DroMoj_CAF1 66888 100 + 1
CAAGGAAAAAUCCAGUUCGGAAAGCGAUCGCUAUGCGCUGUGGGCCAAGACCAGAGAGCUAACUAAAUCUGAAGAAGGCAAUAGGCAUAGAGACAUAGAC
...(((....)))...(((.....)))((.((((((.((((..(((.....((((.((....))...)))).....))).)))))))))).))....... ( -25.30)
>DroAna_CAF1 58087 100 + 1
GAAGGAAAAGUCCGGCUCGGAGAGUGAGCGGUAUGCCCUCUGGGCCAAAACCAGGGAACUGGAGAGAUCUAGUUCCGCGCAUCGUCAUGCCGAUGUGGAU
...(((....)))(((((((((.((.........)).)))))))))........(((((((((....))))))))).(((((((......)))))))... ( -41.70)
>consensus
GAAGGAAAAGUCCGGUUCGGAAAGUGAGAAAUACGCCCUGUGGGCCAAGACCAGGGAACUGGAAAGAUCGCAUUCCGGUAACCGACACUCAGAUGUGGAC
...(((....)))...((((...(((........((((...))))........((..(((((((........)))))))..))..))).))))....... (-14.69 = -14.42 +  -0.27)

alignment

secondary structure

dotplot

Window 0

Location	16,870,662 – 16,870,762
Length	100
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	74.60
Mean single sequence MFE	-32.42
Consensus MFE	-13.62
Energy contribution	-14.27
Covariance contribution	0.64
Combinations/Pair	1.43
Mean z-score	-2.24
Structure conservation index	0.42
SVM decision value	0.96
SVM RNA-class probability	0.891108
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16870662 100 - 23771897
AUCAACAUCUGAGUGUCGGGUACCGGAAUGUGAUCUUUCCAGUUCCCUGGUCUUGGCCCACAAGGCAUAUUUCUCACUAUCAGAACCGGACUUUUCCUUC
.......((((((((..(((.((.((((........)))).)).)))..((((((.....))))))........)))..)))))...(((....)))... ( -27.00)
>DroPse_CAF1 61639 100 - 1
GUCCACGUCGGUGUGUCGAUGCCGGGAGCUGGACCUCUCCAGCUCCCGUGUCUUGGCCCACAGGGCGUAGCGCUCGCUCUCCGAACCGGACUUUUCCUUG
((((...((((((.(((((.(((((((((((((....))))))))))).)).))))).)))((((((.......)))))).)))...))))......... ( -50.20)
>DroEre_CAF1 61056 100 - 1
GUCCACUUCUGAGUGCCUGGUACUGGAAUGCGAUCUUUCCAGUUGCCUGGUCUUGGCCCACAAGGCGUACUUCUCACUUUCAGAACCGGACUUUUCCUUC
((((..(((((((((...((((((((((........)))))).))))..((((((.....))))))........)))..))))))..))))......... ( -34.10)
>DroYak_CAF1 60411 100 - 1
GUCAACAUCUGAGUGUCGGGUACUGGAAUGCGAUCUUUCCAGUUCCCUGGUCUUGGCCCACAGAGCGUAUUUCUCACUUUCAGAACCGGACUUUUCCUUC
(((....((((((((..(((.(((((((........))))))).))).(((....)))))).(((.......)))....)))))....)))......... ( -30.50)
>DroMoj_CAF1 66888 100 - 1
GUCUAUGUCUCUAUGCCUAUUGCCUUCUUCAGAUUUAGUUAGCUCUCUGGUCUUGGCCCACAGCGCAUAGCGAUCGCUUUCCGAACUGGAUUUUUCCUUG
......(((.((((((((...(((....(((((...((....)).)))))....)))....)).)))))).))).............(((....)))... ( -22.00)
>DroAna_CAF1 58087 100 - 1
AUCCACAUCGGCAUGACGAUGCGCGGAACUAGAUCUCUCCAGUUCCCUGGUUUUGGCCCAGAGGGCAUACCGCUCACUCUCCGAGCCGGACUUUUCCUUC
.(((.(((((......)))))...((((((.((....)).))))))..(((....((((...))))..)))((((.......)))).))).......... ( -30.70)
>consensus
GUCCACAUCUGAGUGUCGAGUACCGGAAUGAGAUCUUUCCAGUUCCCUGGUCUUGGCCCACAGGGCAUACCGCUCACUUUCAGAACCGGACUUUUCCUUC
((((...((((.(((.........((((........)))).........((((((.....))))))........)))...))))...))))......... (-13.62 = -14.27 +   0.64)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:27 2006