Locus 3710

Sequence ID 2L_DroMel_CAF1
Location 10,811,501 – 10,811,597
Length 96
Max. P 0.919616
window5845 window5846

overview

Window 5

Location 10,811,501 – 10,811,597
Length 96
Sequences 6
Columns 96
Reading direction forward
Mean pairwise identity 89.44
Mean single sequence MFE -37.68
Consensus MFE -32.72
Energy contribution -33.45
Covariance contribution 0.73
Combinations/Pair 1.27
Mean z-score -2.08
Structure conservation index 0.87
SVM decision value 1.13
SVM RNA-class probability 0.919616
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10811501 96 + 22407834
GGCGUAAGGGAAAUUGCGCGGAUUUGUCUGCUCUCUCAAGCGGCACGCACUUAAGUGCGUGUCCUUAUCCCUGCGCGCAUCGGUAUGCGUGCGAGG
......(((((......(((((....)))))......(((.(((((((((....)))))))))))).)))))((((((((....)))))))).... ( -43.30)
>DroSec_CAF1 45214 96 + 1
GGCAGAAGGGAAAUUGCGCGGAUUUGUCUGCUCUCUCAAGCGGCACGCACUUAAGUGCGUGUCCUUAUCCCUGCGCGCAUCGGUAUGUGUGCGAGG
......(((((......(((((....)))))......(((.(((((((((....)))))))))))).)))))((((((((....)))))))).... ( -41.40)
>DroSim_CAF1 50609 96 + 1
GGCGGAAGGGAAAUUGCGCGGAUUUGUCUGCUCUCUCAAGCGGCACGCACUUAAGUGCGUGUCCUUAUCCCUGUGCGCAUCGGUAUGUGUGCGAGG
......(((((......(((((....)))))......(((.(((((((((....)))))))))))).)))))(..(((((....)))))..).... ( -39.00)
>DroEre_CAF1 46035 94 + 1
GGCGGAAGGGAAAUUGCGCGGAUUUGUCUGCUCUCUCAAGCGGCACGCACUUAAGUGCGUGUCCUUAUCCCA--GUGCAUCGGUGUGUGUGCGAGU
.......((((......(((((....)))))......(((.(((((((((....)))))))))))).)))).--(..(((......)))..).... ( -35.10)
>DroYak_CAF1 47085 96 + 1
GGCGGAAGGGAAAUUGCGCGGAUUUGUCUGUUCUCUCGAGCGGCACGCACUUAAGUGCGUGUCCUUAUCCCUGCGUGCAUCGGUAUGUGUGCCAGU
((((..(((((....(.(((((....))))).)....(((.(((((((((....)))))))))))).)))))((((((....)))))).))))... ( -39.70)
>DroAna_CAF1 45634 88 + 1
GGCAAAAGGGAAAUUGCGCGGAUUUGUCUGCUCUCUCAAGCGGCACGCACUUAAGUGCGGGUCCUUAUCCUUUU--------CUAUGUGUCAGUGU
(((((((((((......(((((....)))))......(((.(((.(((((....))))).)))))).)))))))--------.....))))..... ( -27.60)
>consensus
GGCGGAAGGGAAAUUGCGCGGAUUUGUCUGCUCUCUCAAGCGGCACGCACUUAAGUGCGUGUCCUUAUCCCUGCGCGCAUCGGUAUGUGUGCGAGG
......(((((......(((((....)))))......(((.(((((((((....)))))))))))).)))))((((((((....)))))))).... (-32.72 = -33.45 +   0.73)

alignment

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secondary structure

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dotplot

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Window 6

Location 10,811,501 – 10,811,597
Length 96
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 89.44
Mean single sequence MFE -31.50
Consensus MFE -26.03
Energy contribution -26.00
Covariance contribution -0.03
Combinations/Pair 1.09
Mean z-score -2.15
Structure conservation index 0.83
SVM decision value 0.50
SVM RNA-class probability 0.759499
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10811501 96 - 22407834
CCUCGCACGCAUACCGAUGCGCGCAGGGAUAAGGACACGCACUUAAGUGCGUGCCGCUUGAGAGAGCAGACAAAUCCGCGCAAUUUCCCUUACGCC
....((..((((....))))((((..((((..((.(((((((....)))))))))((((....))))......))))))))............)). ( -38.40)
>DroSec_CAF1 45214 96 - 1
CCUCGCACACAUACCGAUGCGCGCAGGGAUAAGGACACGCACUUAAGUGCGUGCCGCUUGAGAGAGCAGACAAAUCCGCGCAAUUUCCCUUCUGCC
....((((.......).)))((((..((((..((.(((((((....)))))))))((((....))))......))))))))............... ( -34.40)
>DroSim_CAF1 50609 96 - 1
CCUCGCACACAUACCGAUGCGCACAGGGAUAAGGACACGCACUUAAGUGCGUGCCGCUUGAGAGAGCAGACAAAUCCGCGCAAUUUCCCUUCCGCC
.................(((((....((((..((.(((((((....)))))))))((((....))))......))))))))).............. ( -32.80)
>DroEre_CAF1 46035 94 - 1
ACUCGCACACACACCGAUGCAC--UGGGAUAAGGACACGCACUUAAGUGCGUGCCGCUUGAGAGAGCAGACAAAUCCGCGCAAUUUCCCUUCCGCC
....((((.......).)))..--..((((..((.(((((((....)))))))))((((....))))......))))(((.((......)).))). ( -29.30)
>DroYak_CAF1 47085 96 - 1
ACUGGCACACAUACCGAUGCACGCAGGGAUAAGGACACGCACUUAAGUGCGUGCCGCUCGAGAGAACAGACAAAUCCGCGCAAUUUCCCUUCCGCC
...(((...(((....)))...(.(((((...((.(((((((....)))))))))((.((.((...........)))).))....))))).).))) ( -29.50)
>DroAna_CAF1 45634 88 - 1
ACACUGACACAUAG--------AAAAGGAUAAGGACCCGCACUUAAGUGCGUGCCGCUUGAGAGAGCAGACAAAUCCGCGCAAUUUCCCUUUUGCC
..............--------....((((..((.(.(((((....))))).)))((((....))))......))))..((((........)))). ( -24.60)
>consensus
ACUCGCACACAUACCGAUGCGCGCAGGGAUAAGGACACGCACUUAAGUGCGUGCCGCUUGAGAGAGCAGACAAAUCCGCGCAAUUUCCCUUCCGCC
..........................((((..((.(((((((....)))))))))((((....))))......))))(((.((......)).))). (-26.03 = -26.00 +  -0.03)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:09 2006