Locus 8653

Sequence ID 3R_DroMel_CAF1
Location 23,144,345 – 23,144,455
Length 110
Max. P 0.645978
window13896 window13897

overview

Window 6

Location 23,144,345 – 23,144,455
Length 110
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 81.88
Mean single sequence MFE -38.61
Consensus MFE -24.38
Energy contribution -22.97
Covariance contribution -1.41
Combinations/Pair 1.37
Mean z-score -1.64
Structure conservation index 0.63
SVM decision value -0.03
SVM RNA-class probability 0.520160
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23144345 110 + 27905053
GAGCCAAACAUCAAAGUCAGCCGGAGCAAGUGCAUCCAGCUGUGACAUUGUUCAAAGGCCUGCAGCAAAACUGUGGCCAGCUUCUGCUCCAGCAGCUGCAUUCGGCUGAA
................(((((((((((....))...(((((((.............((((.((((.....))))))))(((....)))...)))))))..))))))))). ( -40.90)
>DroVir_CAF1 1644 110 + 1
CAGCCAAACAUAAUCGUCAGCUUGAGCAGGUGGAUCCAACUGUGGCACUGCUCGAAAGCCUGCAGCAGUACGGUGGCCAGCUUCUGUUCCAGCUGCUGCAUGCGCUCAUA
...............((.(((((((((((.((...(((....)))))))))))))..((.(((((((((((((.((....)).))))....))))))))).))))).)). ( -38.10)
>DroEre_CAF1 1378 110 + 1
GAGCCAAACAUCAAAGUCAGUCGGAGCAAGUGCAUCCAGCUGUGACAUUGUUCAAAGGCCUGGAGCAACACCGUGGCCAGCUUCUGCUCCAGCAGUUGCAUUCGGCUAAA
.((((.((((.......((((.(((((....)).))).))))......))))....(((((((.......))).)))).((..((((....))))..))....))))... ( -36.62)
>DroYak_CAF1 1388 110 + 1
GUGCCGAACAUCAAAGUCAGCCGGAGCAAGUGCAUCCAGCUGUGACAUUGUUCAAAGGCCUGCAGCAAAACGGUGGCCAGCUUCUGCUCCAGCAGUUGCAUUCGGCUAAA
..((((((((.......((((.(((((....)).))).))))......)))))...((((.((.(.....).)))))).((..((((....))))..))....))).... ( -38.22)
>DroMoj_CAF1 1892 110 + 1
CAGCCGAACAUCAGGGUCAGCUUAAGCAGGUGCACCCAGCUGUAGCACUGCUCGAAGGCCUGCAGCAGCACGGUGGCCAGCUUCUGCUCCAGUUGCUGCAUGCGCUGGAA
((((.........(((((...(..(((((.(((((......)).))))))))..).)))))(((((((((.(.(((..(((....)))))).))))))).)))))))... ( -41.70)
>DroAna_CAF1 1200 110 + 1
CCGCCAAACAUCAGUGUCAGCCGGAGCAGGUGCGUCCAGCUGUAACACUGCUCGAAAGCCUGAAGCAGGACAGUGGCCAGUUUCUGUUCCAGCAACUGCAUCCUGCCGAA
.((.((.....((((....((.((((((((.((..(((.((((....(((((((......)).))))).)))))))...)).)))))))).)).)))).....)).)).. ( -36.10)
>consensus
CAGCCAAACAUCAAAGUCAGCCGGAGCAAGUGCAUCCAGCUGUGACACUGCUCAAAGGCCUGCAGCAAAACGGUGGCCAGCUUCUGCUCCAGCAGCUGCAUUCGGCUAAA
..((((...........(((((.((((((.((((......))))...))))))...)).)))...........))))(((((.(((...))).)))))............ (-24.38 = -22.97 +  -1.41)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 23,144,345 – 23,144,455
Length 110
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 81.88
Mean single sequence MFE -42.19
Consensus MFE -27.43
Energy contribution -27.19
Covariance contribution -0.25
Combinations/Pair 1.28
Mean z-score -1.84
Structure conservation index 0.65
SVM decision value 0.23
SVM RNA-class probability 0.645978
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 23144345 110 - 27905053
UUCAGCCGAAUGCAGCUGCUGGAGCAGAAGCUGGCCACAGUUUUGCUGCAGGCCUUUGAACAAUGUCACAGCUGGAUGCACUUGCUCCGGCUGACUUUGAUGUUUGGCUC
...((((((((((((((((....)))(((((((....))))))))))))...........(((.((((..((((((.((....)))))))))))).)))..)))))))). ( -45.00)
>DroVir_CAF1 1644 110 - 1
UAUGAGCGCAUGCAGCAGCUGGAACAGAAGCUGGCCACCGUACUGCUGCAGGCUUUCGAGCAGUGCCACAGUUGGAUCCACCUGCUCAAGCUGACGAUUAUGUUUGGCUG
...(((.((.((((((((.(((..(((...)))....)))..)))))))).)).)))(((((((((((....)))...)).)))))).(((..((......).)..))). ( -36.20)
>DroEre_CAF1 1378 110 - 1
UUUAGCCGAAUGCAACUGCUGGAGCAGAAGCUGGCCACGGUGUUGCUCCAGGCCUUUGAACAAUGUCACAGCUGGAUGCACUUGCUCCGACUGACUUUGAUGUUUGGCUC
...((((((((.(((..((((((((((..((((....)))).)))))))).))..)))..(((.((((..(.((((.((....)))))).))))).)))..)))))))). ( -40.00)
>DroYak_CAF1 1388 110 - 1
UUUAGCCGAAUGCAACUGCUGGAGCAGAAGCUGGCCACCGUUUUGCUGCAGGCCUUUGAACAAUGUCACAGCUGGAUGCACUUGCUCCGGCUGACUUUGAUGUUCGGCAC
....(((((((((..((((....))))..)).((((...((......)).))))......(((.((((..((((((.((....)))))))))))).)))..))))))).. ( -42.70)
>DroMoj_CAF1 1892 110 - 1
UUCCAGCGCAUGCAGCAACUGGAGCAGAAGCUGGCCACCGUGCUGCUGCAGGCCUUCGAGCAGUGCUACAGCUGGGUGCACCUGCUUAAGCUGACCCUGAUGUUCGGCUG
...(((((((.((((((..((((((....)))..)))...))))))))).......((((((......(((((....((....))...))))).......)))))))))) ( -41.02)
>DroAna_CAF1 1200 110 - 1
UUCGGCAGGAUGCAGUUGCUGGAACAGAAACUGGCCACUGUCCUGCUUCAGGCUUUCGAGCAGUGUUACAGCUGGACGCACCUGCUCCGGCUGACACUGAUGUUUGGCGG
...((((((..(((((.((..(........)..)).)))))))))))....(((......((((((..((((((((.((....))))))))))))))))......))).. ( -48.20)
>consensus
UUCAGCCGAAUGCAGCUGCUGGAGCAGAAGCUGGCCACCGUGCUGCUGCAGGCCUUCGAACAAUGUCACAGCUGGAUGCACCUGCUCCGGCUGACUUUGAUGUUUGGCUC
..........((((((.(((((..(((...))).)))..))...)))))).(((...(((((......((((((((.((....)))))))))).......)))))))).. (-27.43 = -27.19 +  -0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:16:24 2006