Locus 3694

Sequence ID 2L_DroMel_CAF1
Location 10,773,093 – 10,773,190
Length 97
Max. P 0.654068
window5827 window5828

overview

Window 7

Location 10,773,093 – 10,773,190
Length 97
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 83.17
Mean single sequence MFE -35.47
Consensus MFE -22.93
Energy contribution -23.43
Covariance contribution 0.50
Combinations/Pair 1.16
Mean z-score -2.12
Structure conservation index 0.65
SVM decision value 0.10
SVM RNA-class probability 0.582277
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10773093 97 + 22407834
UCUCGGCCCUCGCCGACGAUUUGUCCAGUCCACUGGCACUGGUCCUGGCCACCGU------------UUCCUGGCUCUCGUCCAGCUUCAGGCUCUUGGCAUCGGCCUU
....((((...((((((((...(.(((((((...)).))))).)..(((((....------------....))))).))))).(((.....)))...)))...)))).. ( -33.70)
>DroVir_CAF1 7464 103 + 1
UCUCGGCACGAGAGGACGCCUUGCCAGCG------GCAUUUGUGUUGGCCCCAGGGUCCGCCUGCUGCUCCUGGCUCUCGUCCAGCUUGAGACUCUCGGCAUCUGCCUU
....((((.((..(((((....(((((.(------(((...(.((.((((....)))).)))...)))).)))))...))))).(((.(((...)))))).)))))).. ( -41.90)
>DroSec_CAF1 6855 97 + 1
UCUCGGCCCUCGCCGACGAUUUGUCCAGUCCACUGGCACUGGUCCUGGCCACCGU------------UUCCUGGCUCUCGUCCAGCUUCAGGCUCUCGGCAUCGGCUUU
....((((...(((((.((..((.((((....))))))((((.(..(((((....------------....)))))...).))))........)))))))...)))).. ( -31.80)
>DroSim_CAF1 6836 97 + 1
UCUCGGCCCUCGCCGACGAUUUGUCCAGUCCACUGGCACUGGUCCUGGCCACCGU------------UUCCUGGCUCUCGUCCAGCUUCAGGCUCUCGGCAUCGGCCUU
....((((...(((((.((..((.((((....))))))((((.(..(((((....------------....)))))...).))))........)))))))...)))).. ( -34.60)
>DroEre_CAF1 7734 91 + 1
UCUCGGCCCUCGCCGACGACUUGUCCAGU------GCACUGGUCCUGGACACCGU------------UUCCUGGCUCUCGUCCAGCUUCAGGCUCUCGGCAUCGGCCUU
....((((...(((((.((..(((((((.------.(....)..)))))))((..------------...(((((....).)))).....)).)))))))...)))).. ( -35.00)
>DroYak_CAF1 7195 91 + 1
UCUCGGCCCUCGCCGACGAUUUGUCCAGU------GCACUGGACCUGGCCACCGU------------UUCCUGGCUCUCGUCCAGCUUCAGGCUCUCGGCAUCGGCCUU
....((((...((((((((...((((((.------...))))))..(((((....------------....))))).))))).(((.....)))...)))...)))).. ( -35.80)
>consensus
UCUCGGCCCUCGCCGACGAUUUGUCCAGU______GCACUGGUCCUGGCCACCGU____________UUCCUGGCUCUCGUCCAGCUUCAGGCUCUCGGCAUCGGCCUU
....((((...((((((((.....(((((........)))))....(((((....................))))).))))).(((.....)))...)))...)))).. (-22.93 = -23.43 +   0.50)

alignment

Postscript

secondary structure

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dotplot

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Window 8

Location 10,773,093 – 10,773,190
Length 97
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 83.17
Mean single sequence MFE -38.73
Consensus MFE -26.14
Energy contribution -27.08
Covariance contribution 0.95
Combinations/Pair 1.09
Mean z-score -2.18
Structure conservation index 0.67
SVM decision value 0.25
SVM RNA-class probability 0.654068
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10773093 97 - 22407834
AAGGCCGAUGCCAAGAGCCUGAAGCUGGACGAGAGCCAGGAA------------ACGGUGGCCAGGACCAGUGCCAGUGGACUGGACAAAUCGUCGGCGAGGGCCGAGA
..((((..((((...(((.....))).(((((...((((...------------.((.(((((.......).)))).))..)))).....)))))))))..)))).... ( -38.80)
>DroVir_CAF1 7464 103 - 1
AAGGCAGAUGCCGAGAGUCUCAAGCUGGACGAGAGCCAGGAGCAGCAGGCGGACCCUGGGGCCAACACAAAUGC------CGCUGGCAAGGCGUCCUCUCGUGCCGAGA
..((((((.(((....(.(((...((((.(....)))))))))....)))(((((((...((((.(........------.).)))).))).))))..)).)))).... ( -36.70)
>DroSec_CAF1 6855 97 - 1
AAAGCCGAUGCCGAGAGCCUGAAGCUGGACGAGAGCCAGGAA------------ACGGUGGCCAGGACCAGUGCCAGUGGACUGGACAAAUCGUCGGCGAGGGCCGAGA
...(((..((((((((.((((..(((((.(....))).(...------------.))))...)))).(((((.((...))))))).....)).))))))..)))..... ( -35.30)
>DroSim_CAF1 6836 97 - 1
AAGGCCGAUGCCGAGAGCCUGAAGCUGGACGAGAGCCAGGAA------------ACGGUGGCCAGGACCAGUGCCAGUGGACUGGACAAAUCGUCGGCGAGGGCCGAGA
..((((..((((((((.((((..(((((.(....))).(...------------.))))...)))).(((((.((...))))))).....)).))))))..)))).... ( -39.50)
>DroEre_CAF1 7734 91 - 1
AAGGCCGAUGCCGAGAGCCUGAAGCUGGACGAGAGCCAGGAA------------ACGGUGUCCAGGACCAGUGC------ACUGGACAAGUCGUCGGCGAGGGCCGAGA
..((((..((((((..((.((...((((((....(((.(...------------.))))))))))..((((...------.)))).)).))..))))))..)))).... ( -41.00)
>DroYak_CAF1 7195 91 - 1
AAGGCCGAUGCCGAGAGCCUGAAGCUGGACGAGAGCCAGGAA------------ACGGUGGCCAGGUCCAGUGC------ACUGGACAAAUCGUCGGCGAGGGCCGAGA
..((((..((((((((.((....(((((((..(.(((((...------------.)..)))))..)))))))..------...)).....)).))))))..)))).... ( -41.10)
>consensus
AAGGCCGAUGCCGAGAGCCUGAAGCUGGACGAGAGCCAGGAA____________ACGGUGGCCAGGACCAGUGC______ACUGGACAAAUCGUCGGCGAGGGCCGAGA
..((((..((((((((........((((.(....)))))............................(((((........))))).....)).))))))..)))).... (-26.14 = -27.08 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:52 2006