Locus 7002

Sequence ID 2L_DroMel_CAF1
Location 19,499,679 – 19,499,829
Length 150
Max. P 0.869683
window11166 window11167

overview

Window 6

Location 19,499,679 – 19,499,790
Length 111
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 72.11
Mean single sequence MFE -41.11
Consensus MFE -21.12
Energy contribution -21.77
Covariance contribution 0.64
Combinations/Pair 1.20
Mean z-score -1.81
Structure conservation index 0.51
SVM decision value 0.86
SVM RNA-class probability 0.869683
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19499679 111 - 22407834
GCGCCAGCAGCGUGAACAGCUGUACAAGAAGAUGGAGCUCCUCUCCAGUCAGGGUCUGUUGCUGUCGCCCAGCACUCCCCUGCCACCG------GUCAGCAACAAUCAUCCUCCACC
......((((((....).)))))....((...(((((.....))))).))(((((.(((((((((((....(((......)))...))------).))))))))...)))))..... ( -33.40)
>DroVir_CAF1 17255 108 - 1
GCGUCAACAGCGCGAGCAGCUAUAUCGCAAAAUGGAGCUCCUGUCCAGUCAGGGUCUGUUGCUAUCGCCCAGCACGCCGUUGCCAACGCUAUCGCCAGCG---------CUGGCGCC
((((...((((((..((.((......))....((((((..(((......)))(((.(((((........))))).)))))).)))........))..)))---------))))))). ( -35.40)
>DroPse_CAF1 17932 108 - 1
GCGCCAGCAGCGGGAGCAGCUCUACCGCAAGAUGGAGCUGCUCUCUAGCCAGGGUCUUCUGCUCUCUCCCAGCACCCCGCUGCCGCCCAUGCCGGUGGCC---------UCUACUCC
..(((.((((((((((((((((((.(....).)))))))))))....((..(((.............))).))...))))))).(((......)))))).---------........ ( -48.72)
>DroGri_CAF1 16844 96 - 1
GCGUCAGCAGCGCGAGCAGCUCUAUCGCAAAAUGGAGCUGCUGUCCAGUCAGGGAUUGCUGCUGUCGCCGAGCACACCGCUGCCGACAC---------------------UGGCACC
(((.(((((((...(((((((((((......)))))))))))((((......)))).))))))).)))..(((.....)))((((....---------------------))))... ( -46.40)
>DroMoj_CAF1 18188 108 - 1
ACGCCAGCAGCGUGAGCAGCUCUAUCGGAAAAUGGAGUUGUUGUCCAGUCAAGGCCUUUUGCUAUCGCCCAGUACUCCGCUGCCAACGCUUGCGCCAGCC---------CUCGCACC
..((..((.(((..(((((((((((......))))))))((((..((((..((..((...((....))..))..))..)))).)))))))..)))..)).---------...))... ( -34.00)
>DroPer_CAF1 15990 108 - 1
GCGCCAGCAGCGGGAGCAGCUCUACCGCAAGAUGGAGCUGCUCUCUAGCCAGGGUCUUCUGCUCUCUCCCAGCACCCCGCUGCCGCCCAUGCCGGUGGCC---------UCUACUCC
..(((.((((((((((((((((((.(....).)))))))))))....((..(((.............))).))...))))))).(((......)))))).---------........ ( -48.72)
>consensus
GCGCCAGCAGCGCGAGCAGCUCUACCGCAAAAUGGAGCUGCUCUCCAGUCAGGGUCUGCUGCUAUCGCCCAGCACCCCGCUGCCAACGCU__CGGUAGCC_________CCUGCACC
......((((((..((((((((((........)))))))))).................((((.......))))...)))))).................................. (-21.12 = -21.77 +   0.64)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 7

Location 19,499,712 – 19,499,829
Length 117
Sequences 6
Columns 117
Reading direction reverse
Mean pairwise identity 81.54
Mean single sequence MFE -44.44
Consensus MFE -28.84
Energy contribution -28.40
Covariance contribution -0.44
Combinations/Pair 1.50
Mean z-score -1.83
Structure conservation index 0.65
SVM decision value 0.30
SVM RNA-class probability 0.677770
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19499712 117 - 22407834
GCAGUUGCAGAAACAGAUCAAAGCCGAGCAGGAGGAUGUGCGCCAGCAGCGUGAACAGCUGUACAAGAAGAUGGAGCUCCUCUCCAGUCAGGGUCUGUUGCUGUCGCCCAGCACUCC
((.((.((((.((((((((...((.(.(..((((((...((.(((((((((....).))))).........))).)))))))))).))...)))))))).)))).))...))..... ( -36.30)
>DroVir_CAF1 17285 117 - 1
AAAUUUGCAGCAGCAGAUCAAGGCCGAGCAGGAGGAUGUGCGUCAACAGCGCGAGCAGCUAUAUCGCAAAAUGGAGCUCCUGUCCAGUCAGGGUCUGUUGCUAUCGCCCAGCACGCC
......(((((((((((((..(((.(..((((((((((((((....).((....)).)).))))).(.....)...))))))..).)))..)))))))))))...((...))..)). ( -43.20)
>DroPse_CAF1 17962 117 - 1
CCAGUUGCAGCAGGAGAUCAAGGCCGAGCAGGAGGAUGUGCGCCAGCAGCGGGAGCAGCUCUACCGCAAGAUGGAGCUGCUCUCUAGCCAGGGUCUUCUGCUCUCUCCCAGCACCCC
...((((.(((((((((((..(((...((.((.(......).)).))...(((((((((((((.(....).)))))))))))))..)))..)))))))))))......))))..... ( -54.70)
>DroGri_CAF1 16862 117 - 1
GCAGCUCCAACAGCAGAUCAAGGCCGAGCAGGAGGAUGUGCGUCAGCAGCGCGAGCAGCUCUAUCGCAAAAUGGAGCUGCUGUCCAGUCAGGGAUUGCUGCUGUCGCCGAGCACACC
...((((.....(((.(((....((.....))..))).)))(.(((((((...(((((((((((......)))))))))))((((......)))).))))))).)...))))..... ( -51.80)
>DroMoj_CAF1 18218 117 - 1
GCAGCUGCAGCAGCAAAUUAAGGCCGAACAGGAGGACAUACGCCAGCAGCGUGAGCAGCUCUAUCGGAAAAUGGAGUUGUUGUCCAGUCAAGGCCUUUUGCUAUCGCCCAGUACUCC
...((((..((((((((...(((((........((((.(((((.....)))))(((((((((((......)))))))))))))))......)))))))))))...)).))))..... ( -41.64)
>DroAna_CAF1 14728 117 - 1
GAAACUGCAGCAACAGAUCAAGGCCGAGCAAGAGGAUGUGCGUCAGCAACGCGAGCAACUCUACCGGAAAAUGGAGUUGCUCUCAAGCCAAGGCUUGCUUCUUUCGCCCAGCACUCC
....(((......))).....((.(((..((((((....((((.....))))(((((((((((........))))))))))).(((((....)))))))))))))).))........ ( -39.00)
>consensus
GCAGCUGCAGCAGCAGAUCAAGGCCGAGCAGGAGGAUGUGCGCCAGCAGCGCGAGCAGCUCUACCGCAAAAUGGAGCUGCUCUCCAGUCAGGGUCUGCUGCUAUCGCCCAGCACUCC
...((((....(((((....(((((..((.(((.....(((((.....)))))((((((((((........)))))))))).))).))...))))).)))))......))))..... (-28.84 = -28.40 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:24:58 2006