Locus 6219

Sequence ID 2L_DroMel_CAF1
Location 17,309,808 – 17,309,919
Length 111
Max. P 0.678553
window9937 window9938

overview

Window 7

Location 17,309,808 – 17,309,919
Length 111
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 85.06
Mean single sequence MFE -37.21
Consensus MFE -24.13
Energy contribution -26.68
Covariance contribution 2.56
Combinations/Pair 1.07
Mean z-score -3.38
Structure conservation index 0.65
SVM decision value 0.30
SVM RNA-class probability 0.678553
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17309808 111 + 22407834
UGCUGAAUGGGCAGAAAAAAUAGCUUUAAUGGUCUUUUGGCCAGCCAAAGCGAAUA--GGAGAUCCGGCAUAUAGGAUC------CCGGACAAAAGACCAGGAACCGAGGG-CCAUCAGA
..((((.(((.(.................((((((((((.((.((....)).....--((.(((((........)))))------)))).))))))))))(....)...).-))))))). ( -38.00)
>DroSec_CAF1 7434 112 + 1
UGCUGAAUGGGCAGAAAAAAUAGCUUUAAUGGUCUUUUGGCCAGCCAAAGCGAAUA--GGAGAUCCGGCAUAUAGGAUC------CCGGACAAAAGACCAGGAACCGAAGGCCCAUCAGA
..((((.(((((.................((((((((((.((.((....)).....--((.(((((........)))))------)))).))))))))))(....)....))))))))). ( -42.60)
>DroSim_CAF1 8920 112 + 1
UGCUGAAUGGGCAGAAAAAAUAUCUUUAAUGGUCUUUUGGCCAGCCAAAGCGAAUA--GGAGAUCCGGCAUAUAGGAUC------CCGGACAAAAGAGCAGGAACCGAAGGCCCAUCAGA
..((((.(((((.................((.(((((((.((.((....)).....--((.(((((........)))))------)))).))))))).))(....)....))))))))). ( -38.10)
>DroEre_CAF1 9928 111 + 1
UGCUGAAUGGGCAGAAAAAAUAGCUUUAAUGGUCUUUUGGCCAGCCAAAGCGAAUG--GGGAACACGGAACAUAGGAUC------CCGGACAAAAGACCAGGAACCGA-GGCCCAUCAGA
..((((.(((((.................((((((((((.((.((....)).....--((((.(.(........)).))------)))).))))))))))(....)..-.))))))))). ( -37.80)
>DroYak_CAF1 2282 112 + 1
UGCUGAAUGGGCAGAAAAAAAAGCUUUAAUGGUCUUUUGGGUAGCCAAAGCGAAUG--GGAGAUCCGGAAUACAGGAUC------CCGGACAAAAGACCAGGAACCGAAGGCCCAUCAGA
..((((.(((((.................((((((((((....((....)).....--((.(((((........)))))------))...))))))))))(....)....))))))))). ( -39.30)
>DroAna_CAF1 18391 118 + 1
UGCUGAACGGGCAGAAAAAAUAUUUUUAAUGGUCUUUUGGCCAGC-AAAGCGGACGAAGAGGAUACAAAGGACGAGAUCCAGUGCCAGAACUACAGG-CAGGAAGCCAAGGCGCAAGCGA
.........(((...................((((((((.((...-..............))...))))))))....(((..((((.........))-))))).)))...((....)).. ( -27.43)
>consensus
UGCUGAAUGGGCAGAAAAAAUAGCUUUAAUGGUCUUUUGGCCAGCCAAAGCGAAUA__GGAGAUCCGGAAUAUAGGAUC______CCGGACAAAAGACCAGGAACCGAAGGCCCAUCAGA
..((((.(((((.................((((((((((.((.((....))..........(((((........)))))........)).))))))))))(....)....))))))))). (-24.13 = -26.68 +   2.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 17,309,808 – 17,309,919
Length 111
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 85.06
Mean single sequence MFE -33.89
Consensus MFE -22.88
Energy contribution -24.55
Covariance contribution 1.67
Combinations/Pair 1.17
Mean z-score -2.90
Structure conservation index 0.68
SVM decision value 0.11
SVM RNA-class probability 0.589919
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17309808 111 - 22407834
UCUGAUGG-CCCUCGGUUCCUGGUCUUUUGUCCGG------GAUCCUAUAUGCCGGAUCUCC--UAUUCGCUUUGGCUGGCCAAAAGACCAUUAAAGCUAUUUUUUCUGCCCAUUCAGCA
.((((.((-(....(....)((((((((((.((((------(((((........))))))).--.....((....)).)).)))))))))).................)))...)))).. ( -34.00)
>DroSec_CAF1 7434 112 - 1
UCUGAUGGGCCUUCGGUUCCUGGUCUUUUGUCCGG------GAUCCUAUAUGCCGGAUCUCC--UAUUCGCUUUGGCUGGCCAAAAGACCAUUAAAGCUAUUUUUUCUGCCCAUUCAGCA
.((((((((((....)....((((((((((.((((------(((((........))))))).--.....((....)).)).)))))))))).................))))).)))).. ( -40.70)
>DroSim_CAF1 8920 112 - 1
UCUGAUGGGCCUUCGGUUCCUGCUCUUUUGUCCGG------GAUCCUAUAUGCCGGAUCUCC--UAUUCGCUUUGGCUGGCCAAAAGACCAUUAAAGAUAUUUUUUCUGCCCAUUCAGCA
.(((((((((..........((.(((((((.((((------(((((........))))))).--.....((....)).)).))))))).))....(((.......)))))))).)))).. ( -34.20)
>DroEre_CAF1 9928 111 - 1
UCUGAUGGGCC-UCGGUUCCUGGUCUUUUGUCCGG------GAUCCUAUGUUCCGUGUUCCC--CAUUCGCUUUGGCUGGCCAAAAGACCAUUAAAGCUAUUUUUUCUGCCCAUUCAGCA
.(((((((((.-..((.((((((.(....).))))------)).))................--.....(((((((.(((........))))))))))..........))))).)))).. ( -34.90)
>DroYak_CAF1 2282 112 - 1
UCUGAUGGGCCUUCGGUUCCUGGUCUUUUGUCCGG------GAUCCUGUAUUCCGGAUCUCC--CAUUCGCUUUGGCUACCCAAAAGACCAUUAAAGCUUUUUUUUCUGCCCAUUCAGCA
.((((((((((....)....(((((((((((((((------(((.....))))))))....(--((.......))).....)))))))))).................))))).)))).. ( -37.50)
>DroAna_CAF1 18391 118 - 1
UCGCUUGCGCCUUGGCUUCCUG-CCUGUAGUUCUGGCACUGGAUCUCGUCCUUUGUAUCCUCUUCGUCCGCUUU-GCUGGCCAAAAGACCAUUAAAAAUAUUUUUUCUGCCCGUUCAGCA
..(((.((.....(((.....)-))....))...)))...((((..((.....)).)))).........(((..-((.(((..(((((.............)))))..))).))..))). ( -22.02)
>consensus
UCUGAUGGGCCUUCGGUUCCUGGUCUUUUGUCCGG______GAUCCUAUAUGCCGGAUCUCC__CAUUCGCUUUGGCUGGCCAAAAGACCAUUAAAGCUAUUUUUUCUGCCCAUUCAGCA
.(((((((((....(....)((((((((((.((........(((((........)))))..........((....)).)).)))))))))).................))))).)))).. (-22.88 = -24.55 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:05:32 2006