Locus 1941

Sequence ID 3R_DroMel_CAF1
Location 5,484,565 – 5,484,765
Length 200
Max. P 0.999796
window3190 window3191

overview

Window 0

Location 5,484,565 – 5,484,685
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.83
Mean single sequence MFE -41.29
Consensus MFE -39.87
Energy contribution -38.73
Covariance contribution -1.13
Combinations/Pair 1.18
Mean z-score -2.37
Structure conservation index 0.97
SVM decision value 4.10
SVM RNA-class probability 0.999796
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5484565 120 - 27905053
UGGAUAUCAAGGAGGAAGGUUUCCUCGAGUAUCUGAACAACAUACUCUCGAGCGGCGUUAUAUCAAAUUUAUUCUCGCGCGAUGAGCAGGCCGAAAUCGUGCAGGAGCUAACGCCGGUCA
...........(((((.....)))))((((((.(.....).))))))..((.((((((((...........((((.(((((((...(.....)..)))))))))))..)))))))).)). ( -38.02)
>DroVir_CAF1 23039 120 - 1
UGGAUAUCAAAGAGGAAGGUUUCCUCGAGUAUCUAAAUAAUAUACUCUCGAGCGGUGUCAUAUCAAAUCUCUUCUCGCGCGAUGAGCAGGCCGAAAUCGUGCAGGAGUUGACGCCGGUCA
(((((((....(((((.....)))))..)))))))..............((.((((((((..........(((((.(((((((...(.....)..)))))))))))).)))))))).)). ( -42.30)
>DroGri_CAF1 16624 120 - 1
UGGAUAUCAAGGAGGAAGGUUUCCUCGAGUAUCUCAAUAAUAUACUCUCGAGCGGCGUCAUCUCGAACCUAUUCUCGCGCGAUGAGCAGGCCGAAAUCGUGCAGGAGUUGACGCCGGUCA
...........(((((.....)))))((((((.........))))))..((.((((((((.((((((....)))..(((((((...(.....)..)))))))..))).)))))))).)). ( -44.60)
>DroWil_CAF1 16649 120 - 1
UGGAUAUCAAGGAGGAGGGUUUCCUCGAGUAUCUAAAUAAUAUACUCUCGAGCGGCGUCAUUUCAAAUUUAUUCUCGCGCGAUGAGCAGGCCGAAAUCGUGCAAGAGUUGACGCCGGUCA
(((((((....((((((...))))))..)))))))..............((.((((((((..........(((((.(((((((...(.....)..))))))).))))))))))))).)). ( -41.90)
>DroMoj_CAF1 22941 120 - 1
UGGAUAUUAAAGAGGAAGGUUUCCUUGAGUAUCUCAAUAACAUACUCUCGAGCGGCGUCAUAUCCAAUCUCUUCUCGCGCGAUGAGCAGGCCGAAAUCGUGCAGGAAUUGACGCCGGUCA
.(((((((...(((((.....))))).)))))))...............((.((((((((..(((.....((.((((.....)))).))((((....)).)).)))..)))))))).)). ( -40.80)
>DroPer_CAF1 12712 120 - 1
UGGAUAUCAAAGAGGAAGGUUUCCUCGAGUAUCUCAAUAACAUACUCUCGAGCGGUGUCAUAUCGAAUCUAUUCUCGCGCGAUGAGCAGGCCGAAAUCGUGCAAGAGCUGACGCCGGUCA
...........(((((.....)))))((((((.........))))))..((.((((((((..(((((....)))..(((((((...(.....)..)))))))..))..)))))))).)). ( -40.10)
>consensus
UGGAUAUCAAAGAGGAAGGUUUCCUCGAGUAUCUCAAUAACAUACUCUCGAGCGGCGUCAUAUCAAAUCUAUUCUCGCGCGAUGAGCAGGCCGAAAUCGUGCAGGAGUUGACGCCGGUCA
...........((((((...))))))((((((.........))))))..((.((((((((...........((((.(((((((...(.....)..))))))).)))).)))))))).)). (-39.87 = -38.73 +  -1.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 5,484,645 – 5,484,765
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 91.39
Mean single sequence MFE -38.18
Consensus MFE -33.40
Energy contribution -32.63
Covariance contribution -0.77
Combinations/Pair 1.19
Mean z-score -2.30
Structure conservation index 0.87
SVM decision value 1.75
SVM RNA-class probability 0.975358
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5484645 120 - 27905053
CAAUUUUCUUGAGGAUCUAAAGCUGCUCUACCGCACCUGCGGCGUUCAGGGCAAGGGCACAACCUUUCUCUUCACCGACAUGGAUAUCAAGGAGGAAGGUUUCCUCGAGUAUCUGAACAA
.......((((((((......((((((((.((((....)))).....)))))...)))..((((((((((((..((.....))......))))))))))))))))))))........... ( -37.90)
>DroVir_CAF1 23119 120 - 1
CAACUUUUUAGAGGACCUAAAGCUGCUCUAUCGCACCUGCGGCGUUCAGGGCAAGGGCACAACCUUUCUCUUCACCGAUAUGGAUAUCAAAGAGGAAGGUUUCCUCGAGUAUCUAAAUAA
..((((....(((((......(.((((((...((.((((.......)))))).)))))))((((((((((((....((((....)))).))))))))))))))))))))).......... ( -36.00)
>DroWil_CAF1 16729 120 - 1
CAAUUUUCUGGAGGACCUAAAGCUGCUCUAUCGUACCUGCGGCGUGCAAGGCAAGGGCACAACCUUCCUCUUUACUGACUUGGAUAUCAAGGAGGAGGGUUUCCUCGAGUAUCUAAAUAA
.......((.(((((......(((((............)))))((((.........))))((((((((((((...(((........)))))))))))))))))))).))........... ( -38.10)
>DroMoj_CAF1 23021 120 - 1
CAACUUUUUAGAGGACCUAAAGCUGCUCUAUCGCACCUGCGGCGUUCAGGGCAAGGGCACAACCUUUCUCUUCACCGAUAUGGAUAUUAAAGAGGAAGGUUUCCUUGAGUAUCUCAAUAA
..........((((.(((...(((((............)))))....))).((((((...((((((((((((..((.....))......))))))))))))))))))....))))..... ( -34.90)
>DroAna_CAF1 16676 120 - 1
CAAUUUUCUGGAGGAUCUAAAGCUGCUCUACCGCACCUGCGGCGUACAGGGCAAGGGCACAACCUUCCUCUUUACGGAUAUGGAUAUCAAGGAGGAAGGUUUCCUCGAGUAUCUAAACAA
.......((.(((((......(.((((((...((.((((.......)))))).)))))))(((((((((((((...((((....)))))))))))))))))))))).))........... ( -42.30)
>DroPer_CAF1 12792 120 - 1
CAAUUUUCUAGAGGAUCUAAAGCUGCUCUACCGCACCUGCGGCGUGCAGGGGAAGGGCACAACCUUUCUCUUCACUGACAUGGAUAUCAAAGAGGAAGGUUUCCUCGAGUAUCUCAAUAA
..........(((((......(.((((((.((...(((((.....))))))).)))))))((((((((((((...(((........))))))))))))))))))))(((...)))..... ( -39.90)
>consensus
CAAUUUUCUAGAGGACCUAAAGCUGCUCUACCGCACCUGCGGCGUUCAGGGCAAGGGCACAACCUUUCUCUUCACCGACAUGGAUAUCAAAGAGGAAGGUUUCCUCGAGUAUCUAAAUAA
.......((.(((((......(.((((((...((.((((.......)))))).)))))))((((((((((((.................))))))))))))))))).))........... (-33.40 = -32.63 +  -0.77)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:26 2006