Locus 6548

Sequence ID 2L_DroMel_CAF1
Location 18,433,854 – 18,434,004
Length 150
Max. P 0.967600
window10448 window10449

overview

Window 8

Location 18,433,854 – 18,433,964
Length 110
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 90.15
Mean single sequence MFE -27.40
Consensus MFE -20.04
Energy contribution -20.00
Covariance contribution -0.04
Combinations/Pair 1.19
Mean z-score -2.17
Structure conservation index 0.73
SVM decision value 0.60
SVM RNA-class probability 0.797135
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18433854 110 - 22407834
AUAAGAGAAGUGGACUCAUUUGUUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAACGAUAAGG-GGCGAGAAAAUGGGGAAAAAUAGUGGGGAACAGGUGGGCAGGU
............(.((((((((((..((((.....(((.((....)).))).(((((..(.....).-.))))).................)))).))))))))))).... ( -26.90)
>DroSec_CAF1 272290 107 - 1
AUAAGAGUAGUGGGUUCAUUUGUUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAACGAUAAGG-GGCGAGAAAAUGGGGAAAAAUAGUGGGGAACAGGUGGGCA---
.............(((((((((((..((((.....(((.((....)).))).(((((..(.....).-.))))).................)))).))))))))))).--- ( -28.20)
>DroSim_CAF1 286162 107 - 1
AUAAGAGAAGUGGACUCAUUUGUUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAACGAUAAGG-GGCGAGAAAAUGGGGAAAAAUAGUGGGGAACAGGUGGGCA---
............(.((((((((((..((((.....(((.((....)).))).(((((..(.....).-.))))).................)))).))))))))))).--- ( -26.90)
>DroEre_CAF1 272929 107 - 1
AUACAAGAAAUGGACUCAUUUGCUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAUCGAUAAGG-GGCGAGAAAGUGGGGAAAACUGAUGUGGAACAGGUGAACA---
.(((..........(((((((.((.((((...((((((.((((.....))))))))))........)-))).)).))))))).....(((........))))))....--- ( -28.90)
>DroYak_CAF1 287488 108 - 1
AUACAAAAAUUGGACUCAUUUGUUGGCCCAAUUGCAAAAUGGAACCAAUUCAUUCGCAUCGAAAGGGUGGUGAGAAAAUGGGGAAAAAUAGUGGGGAACAGGUGAGCA---
............(.((((((((((..((((.((.(.....).))((.(((..(((((.((....))...)))))..))).)).........)))).))))))))))).--- ( -26.10)
>consensus
AUAAGAGAAGUGGACUCAUUUGUUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAACGAUAAGG_GGCGAGAAAAUGGGGAAAAAUAGUGGGGAACAGGUGGGCA___
..............(((((((((...(((.((((.(((.((....)).))).(((((..(.....)...)))))..............)))).))).)))))))))..... (-20.04 = -20.00 +  -0.04)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,433,888 – 18,434,004
Length 116
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 93.04
Mean single sequence MFE -27.83
Consensus MFE -22.59
Energy contribution -23.23
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -2.13
Structure conservation index 0.81
SVM decision value 1.61
SVM RNA-class probability 0.967600
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18433888 116 - 22407834
AUUCUCGAAUCGGUCAACUGUGAUAAUAAAUAAGUAAAAAAUAAGAGAAGUGGACUCAUUUGUUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAACGAUAAGG-GGCGAGAAA
.((((((..((((((((((((....)))................(((.......)))....)))))))...(((((((.((((.....)))))))))))......))-..)))))). ( -29.80)
>DroSec_CAF1 272321 116 - 1
AUUCUCGAAUCGGUCAACUGUGAUAAUAAAUACGUAAAAAAUAAGAGUAGUGGGUUCAUUUGUUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAACGAUAAGG-GGCGAGAAA
.((((((..(((((((((.((((.......(((.............)))......))))..)))))))...(((((((.((((.....)))))))))))......))-..)))))). ( -32.94)
>DroSim_CAF1 286193 116 - 1
AUUCUCGAAUCGGUCAACUGUGAUAAUAAAUACGUAAAAAAUAAGAGAAGUGGACUCAUUUGUUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAACGAUAAGG-GGCGAGAAA
.((((((..(((((((((.((((.......(((................)))...))))..)))))))...(((((((.((((.....)))))))))))......))-..)))))). ( -30.49)
>DroEre_CAF1 272960 115 - 1
AUUCCCGAAUCGGUCAACUGUGAUAAUAAAUAAGUAAA-AAUACAAGAAAUGGACUCAUUUGCUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAUCGAUAAGG-GGCGAGAAA
.....(((((.((((...(((....))).....(((..-..)))........)))).)))))((.((((...((((((.((((.....))))))))))........)-))).))... ( -24.70)
>DroYak_CAF1 287519 117 - 1
AUUCCCGAAUCGGUCAACUGUGAUAAUAAAUAAGUAAAAAAUACAAAAAUUGGACUCAUUUGUUGGCCCAAUUGCAAAAUGGAACCAAUUCAUUCGCAUCGAAAGGGUGGUGAGAAA
...(((...(((((((((.((((...(((....(((.....))).....)))...))))..)))))))....(((..((((((.....)))))).)))..))..))).......... ( -21.20)
>consensus
AUUCUCGAAUCGGUCAACUGUGAUAAUAAAUAAGUAAAAAAUAAGAGAAGUGGACUCAUUUGUUGGCCCAAUUGCGAAAUGGAACCAAUUCAUUCGCAACGAUAAGG_GGCGAGAAA
.((((((..(((((((((.((((................................))))..)))))))....((((((.((((.....)))))))))).......))...)))))). (-22.59 = -23.23 +   0.64)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:55 2006